Citing the Human Protein Atlas

To cite us, please use:

The Human Protein Atlas

 Uhlén M, Fagerberg L, Hallström BM, Lindskog C, Oksvold P, Mardinoglu A, Sivertsson Å, Kampf C, Sjöstedt E, Asplund A, Olsson I, Edlund K, Lundberg E, Navani S, Szigyarto CA, Odeberg J, Djureinovic D, Takanen JO, Hober S, Alm T, Edqvist PH, Berling H, Tegel H, Mulder J, Rockberg J, Nilsson P, Schwenk JM, Hamsten M, von Feilitzen K, Forsberg M, Persson L, Johansson F, Zwahlen M, von Heijne G, Nielsen J, Pontén F.
Tissue-based map of the human proteome.
Science 2015 347(6220):1260419.
PubMed: 25613900 DOI: 10.1126/science.1260419

Brain

 Sjöstedt E, Zhong W, Fagerberg L, Karlsson M, Mitsios N, Adori C, Oksvold P, Edfors F, Limiszewska A, Hikmet F, Huang J, Du Y, Lin L, Dong Z, Yang L, Liu X, Jiang H, Xu X, Wang J, Yang H, Bolund L, Mardinoglu A, Zhang C, von Feilitzen K, Lindskog C, Pontén F, Luo Y, Hökfelt T, Uhlén M, Mulder J.
An atlas of the protein-coding genes in the human, pig, and mouse brain.
Science. 2020 367(6482)
PubMed: 32139519 DOI: 10.1126/science.aay5947

Single Cell Type

 Karlsson M, Zhang C, Méar L, Zhong W, Digre A, Katona B, Sjöstedt E, Butler L, Odeberg J, Dusart P, Edfors F, Oksvold P, von Feilitzen K, Zwahlen M, Arif M, Altay O, Li X, Ozcan M, Mardinoglu A, Fagerberg L, Mulder J, Luo Y, Ponten F, Uhlén M, Lindskog C.
A single-cell type transcriptomics map of human tissues.
Sci Adv. 2021 7(31):.
PubMed: 34321199 DOI: 10.1126/sciadv.abh2169

Pathology / Cancer

 Uhlen M, Zhang C, Lee S, Sjöstedt E, Fagerberg L, Bidkhori G, Benfeitas R, Arif M, Liu Z, Edfors F, Sanli K, von Feilitzen K, Oksvold P, Lundberg E, Hober S, Nilsson P, Mattsson J, Schwenk JM, Brunnström H, Glimelius B, Sjöblom T, Edqvist PH, Djureinovic D, Micke P, Lindskog C, Mardinoglu A, Ponten F.
A pathology atlas of the human cancer transcriptome.
Science. 2017 357(6352)
PubMed: 28818916 DOI: 10.1126/science.aan2507

Immune Cells

 Uhlen M, Karlsson MJ, Zhong W, Tebani A, Pou C, Mikes J, Lakshmikanth T, Forsström B, Edfors F, Odeberg J, Mardinoglu A, Zhang C, von Feilitzen K, Mulder J, Sjöstedt E, Hober A, Oksvold P, Zwahlen M, Ponten F, Lindskog C, Sivertsson Å, Fagerberg L, Brodin P.
A genome-wide transcriptomic analysis of protein-coding genes in human blood cells.
Science. 2019 366(6472)
PubMed: 31857451 DOI: 10.1126/science.aax9198

Human Secretome

 Uhlén M, Karlsson MJ, Hober A, Svensson AS, Scheffel J, Kotol D, Zhong W, Tebani A, Strandberg L, Edfors F, Sjöstedt E, Mulder J, Mardinoglu A, Berling A, Ekblad S, Dannemeyer M, Kanje S, Rockberg J, Lundqvist M, Malm M, Volk AL, Nilsson P, Månberg A, Dodig-Crnkovic T, Pin E, Zwahlen M, Oksvold P, von Feilitzen K, Häussler RS, Hong MG, Lindskog C, Ponten F, Katona B, Vuu J, Lindström E, Nielsen J, Robinson J, Ayoglu B, Mahdessian D, Sullivan D, Thul P, Danielsson F, Stadler C, Lundberg E, Bergström G, Gummesson A, Voldborg BG, Tegel H, Hober S, Forsström B, Schwenk JM, Fagerberg L, Sivertsson Å.
The human secretome.
Sci Signal. 2019 12(609)
PubMed: 31772123 DOI: 10.1126/scisignal.aaz0274 Free access: Abstract, Full text, Reprint

Subcellular

 Thul PJ, Åkesson L, Wiking M, Mahdessian D, Geladaki A, Ait Blal H, Alm T, Asplund A, Björk L, Breckels LM, Bäckström A, Danielsson F, Fagerberg L, Fall J, Gatto L, Gnann C, Hober S, Hjelmare M, Johansson F, Lee S, Lindskog C, Mulder J, Mulvey CM, Nilsson P, Oksvold P, Rockberg J, Schutten R, Schwenk JM, Sivertsson Å, Sjöstedt E, Skogs M, Stadler C, Sullivan DP, Tegel H, Winsnes C, Zhang C, Zwahlen M, Mardinoglu A, Pontén F, von Feilitzen K, Lilley KS, Uhlén M, Lundberg E.
A subcellular map of the human proteome.
Science. 2017 356(6340): eaal3321
PubMed: 28495876 DOI: 10.1126/science.aal3321 Free access: Abstract, Full text, Reprint

The original Human Protein Atlas publication

 Uhlén M, Björling E, Agaton C, Szigyarto CA, Amini B, Andersen E, Andersson AC, Angelidou P, Asplund A, Asplund C, Berglund L, Bergström K, Brumer H, Cerjan D, Ekström M, Elobeid A, Eriksson C, Fagerberg L, Falk R, Fall J, Forsberg M, Björklund MG, Gumbel K, Halimi A, Hallin I, Hamsten C, Hansson M, Hedhammar M, Hercules G, Kampf C, Larsson K, Lindskog M, Lodewyckx W, Lund J, Lundeberg J, Magnusson K, Malm E, Nilsson P, Odling J, Oksvold P, Olsson I, Oster E, Ottosson J, Paavilainen L, Persson A, Rimini R, Rockberg J, Runeson M, Sivertsson A, Sköllermo A, Steen J, Stenvall M, Sterky F, Strömberg S, Sundberg M, Tegel H, Tourle S, Wahlund E, Waldén A, Wan J, Wernérus H, Westberg J, Wester K, Wrethagen U, Xu LL, Hober S, Pontén F.
A human protein atlas for normal and cancer tissues based on antibody proteomics.
Mol Cell Proteomics. 2005 4(12):1920-32.
PubMed: 16127175 DOI: 10.1074/mcp.M500279-MCP200

Publications

837 Yu X, Schwenk JM, Xu P, LaBaer J.
Advances in plasma proteomics: Moving from technology to precision medicine.
Proteomics Clin Appl. 2022 16(6):e2200083.
PubMed: 36377435 DOI: 10.1002/prca.202200083
836 Havervall S, Marking U, Svensson J, Greilert-Norin N, Bacchus P, Nilsson P, Hober S, Gordon M, Blom K, Klingström J, Åberg M, Smed-Sörensen A, Thålin C.
Anti-Spike Mucosal IgA Protection against SARS-CoV-2 Omicron Infection.
N Engl J Med. 2022 387(14):1333-1336.
PubMed: 36103621 DOI: 10.1056/NEJMc2209651
835 Blixt L, Gao Y, Wullimann D, Murén Ingelman-Sundberg H, Muschiol S, Healy K, Bogdanovic G, Pin E, Nilsson P, Kjellander C, Grifoni A, Sette A, Sällberg Chen M, Ljunggren HG, Buggert M, Hansson L, Osterborg A.
Hybrid immunity in immunocompromised patients with CLL after SARS-CoV-2 infection followed by booster mRNA vaccination.
Blood. 2022 Epub ahead of print
PubMed: 36150168 DOI: 10.1182/blood.2022016815
834 Gurke R, Bendes A, Bowes J, Koehm M, Twyman RM, Barton A, Elewaut D, Goodyear C, Hahnefeld L, Hillenbrand R, Hunter E, Ibberson M, Ioannidis V, Kugler S, Lories RJ, Resch E, Rüping S, Scholich K, Schwenk JM, Waddington JC, Whitfield P, Geisslinger G, FitzGerald O, Behrens F, Pennington SR, HIPPOCRATES Consortium.
Omics and Multi-Omics Analysis for the Early Identification and Improved Outcome of Patients with Psoriatic Arthritis.
Biomedicines. 2022 10(10):.
PubMed: 36289648 DOI: 10.3390/biomedicines10102387
833 Gyllensten U, Hedlund-Lindberg J, Svensson J, Manninen J, Öst T, Ramsell J, Åslin M, Ivansson E, Lomnytska M, Lycke M, Axelsson T, Liljedahl U, Nordlund J, Edqvist PH, Sjöblom T, Uhlén M, Stålberg K, Sundfeldt K, Åberg M, Enroth S.
Next Generation Plasma Proteomics Identifies High-Precision Biomarker Candidates for Ovarian Cancer.
Cancers (Basel). 2022 14(7):.
PubMed: 35406529 DOI: 10.3390/cancers14071757
832 Malm M, Kuo CC, Barzadd MM, Mebrahtu A, Wistbacka N, Razavi R, Volk AL, Lundqvist M, Kotol D, Tegel H, Hober S, Edfors F, Gräslund T, Chotteau V, Field R, Varley PG, Roth RG, Lewis NE, Hatton D, Rockberg J.
Harnessing secretory pathway differences between HEK293 and CHO to rescue production of difficult to express proteins.
Metab Eng. 2022 72():171-187.
PubMed: 35301123 DOI: 10.1016/j.ymben.2022.03.009
831 Danielsson H, Tebani A, Zhong W, Fagerberg L, Brusselaers N, Hård AL, Uhlén M, Hellström A.
Blood protein profiles related to preterm birth and retinopathy of prematurity.
Pediatr Res. 2022 91(4):937-946.
PubMed: 33895781 DOI: 10.1038/s41390-021-01528-0
830 Li X, Shong K, Kim W, Yuan M, Yang H, Sato Y, Kume H, Ogawa S, Turkez H, Shoaie S, Boren J, Nielsen J, Uhlen M, Zhang C, Mardinoglu A.
Prediction of drug candidates for clear cell renal cell carcinoma using a systems biology-based drug repositioning approach.
EBioMedicine. 2022 78():103963.
PubMed: 35339898 DOI: 10.1016/j.ebiom.2022.103963
829 Bergman-Larsson J, Gustafsson S, Méar L, Huvila J, Tolf A, Olovsson M, Pontén F, Edqvist PD.
Combined expression of HOXA11 and CD10 identifies endometriosis versus normal tissue and tumors.
Ann Diagn Pathol. 2022 56():151870.
PubMed: 34844098 DOI: 10.1016/j.anndiagpath.2021.151870
828 Karlsson M, Sjöstedt E, Oksvold P, Sivertsson Å, Huang J, Álvez MB, Arif M, Li X, Lin L, Yu J, Ma T, Xu F, Han P, Jiang H, Mardinoglu A, Zhang C, von Feilitzen K, Xu X, Wang J, Yang H, Bolund L, Zhong W, Fagerberg L, Lindskog C, Pontén F, Mulder J, Luo Y, Uhlen M.
Genome-wide annotation of protein-coding genes in pig.
BMC Biol. 2022 20(1):25.
PubMed: 35073880 DOI: 10.1186/s12915-022-01229-y
827 Birgersson M, Katona B, Lindskog C, Pontén F, Williams C.
Antibody Validation for Estrogen Receptor Beta.
Methods Mol Biol. 2022 2418():1-23.
PubMed: 35119656 DOI: 10.1007/978-1-0716-1920-9_1
826 Vessby J, Wisniewski JR, Lindskog C, Eriksson N, Gabrysch K, Zettl K, Wanders A, Carlson M, Rorsman F, Åberg M.
AGPAT1 as a Novel Colonic Biomarker for Discriminating Between Ulcerative Colitis With and Without Primary Sclerosing Cholangitis.
Clin Transl Gastroenterol. 2022 13(5):e00486.
PubMed: 35363634 DOI: 10.14309/ctg.0000000000000486
825 Abdulla M, Hollander P, Lindskog C, Sundström C, Enblad G, Saft L, Amini RM.
Outcome in PCNSL patients and its association with PD-L1+ leukocytes in the tumor microenvironment.
Acta Oncol. 2022 61(7):824-829.
PubMed: 35621149 DOI: 10.1080/0284186X.2022.2075239
824 Corell A, Gómez Vecchio T, Ferreyra Vega S, Dénes A, Neimantaite A, Hagerius A, Barchéus H, Solheim O, Lindskog C, Bontell TO, Carén H, Jakola AS, Smits A.
Stemness and clinical features in relation to the subventricular zone in diffuse lower-grade glioma: an exploratory study.
Neurooncol Adv. 2022 4(1):vdac074.
PubMed: 35795469 DOI: 10.1093/noajnl/vdac074
823 Norreen-Thorsen M, Struck EC, Öling S, Zwahlen M, Von Feilitzen K, Odeberg J, Lindskog C, Pontén F, Uhlén M, Dusart PJ, Butler LM.
A human adipose tissue cell-type transcriptome atlas.
Cell Rep. 2022 40(2):111046.
PubMed: 35830816 DOI: 10.1016/j.celrep.2022.111046
822 Lindskog C, Méar L, Virhammar J, Fällmar D, Kumlien E, Hesselager G, Casar-Borota O, Rostami E.
Protein Expression Profile of ACE2 in the Normal and COVID-19-Affected Human Brain.
J Proteome Res. 2022 21(9):2137-2145.
PubMed: 35901083 DOI: 10.1021/acs.jproteome.2c00184
821 Méar L, Sutantiwanichkul T, Östman J, Damdimopoulou P, Lindskog C.
Spatial Proteomics for Further Exploration of Missing Proteins: A Case Study of the Ovary.
J Proteome Res. 2022 Epub ahead of print
PubMed: 36108145 DOI: 10.1021/acs.jproteome.2c00392
820 Omenn GS, Lane L, Overall CM, Pineau C, Packer NH, Cristea IM, Lindskog C, Weintraub ST, Orchard S, Roehrl MHA, Nice E, Liu S, Bandeira N, Chen YJ, Guo T, Aebersold R, Moritz RL, Deutsch EW.
The 2022 Report on the Human Proteome from the HUPO Human Proteome Project.
J Proteome Res. 2022 Epub ahead of print
PubMed: 36318223 DOI: 10.1021/acs.jproteome.2c00498
819 Yuan M, Shong K, Li X, Ashraf S, Shi M, Kim W, Nielsen J, Turkez H, Shoaie S, Uhlen M, Zhang C, Mardinoglu A.
A Gene Co-Expression Network-Based Drug Repositioning Approach Identifies Candidates for Treatment of Hepatocellular Carcinoma.
Cancers (Basel). 2022 14(6):.
PubMed: 35326724 DOI: 10.3390/cancers14061573
818 Edfors F, Iglesias MJ, Butler LM, Odeberg J.
Proteomics in thrombosis research.
Res Pract Thromb Haemost. 2022 6(3):e12706.
PubMed: 35494505 DOI: 10.1002/rth2.12706
817 Ambikan AT, Yang H, Krishnan S, Svensson Akusjärvi S, Gupta S, Lourda M, Sperk M, Arif M, Zhang C, Nordqvist H, Ponnan SM, Sönnerborg A, Treutiger CJ, O'Mahony L, Mardinoglu A, Benfeitas R, Neogi U.
Multi-omics personalized network analyses highlight progressive disruption of central metabolism associated with COVID-19 severity.
Cell Syst. 2022 13(8):665-681.e4.
PubMed: 35933992 DOI: 10.1016/j.cels.2022.06.006
816 Hickey JW, Neumann EK, Radtke AJ, Camarillo JM, Beuschel RT, Albanese A, McDonough E, Hatler J, Wiblin AE, Fisher J, Croteau J, Small EC, Sood A, Caprioli RM, Angelo RM, Nolan GP, Chung K, Hewitt SM, Germain RN, Spraggins JM, Lundberg E, Snyder MP, Kelleher NL, Saka SK.
Spatial mapping of protein composition and tissue organization: a primer for multiplexed antibody-based imaging.
Nat Methods. 2022 19(3):284-295.
PubMed: 34811556 DOI: 10.1038/s41592-021-01316-y
815 Bagheri N, Carpenter AE, Lundberg E, Plant AL, Horwitz R.
The new era of quantitative cell imaging-challenges and opportunities.
Mol Cell. 2022 82(2):241-247.
PubMed: 35063094 DOI: 10.1016/j.molcel.2021.12.024
814 Melani RD, Gerbasi VR, Anderson LC, Sikora JW, Toby TK, Hutton JE, Butcher DS, Negrão F, Seckler HS, Srzentić K, Fornelli L, Camarillo JM, LeDuc RD, Cesnik AJ, Lundberg E, Greer JB, Fellers RT, Robey MT, DeHart CJ, Forte E, Hendrickson CL, Abbatiello SE, Thomas PM, Kokaji AI, Levitsky J, Kelleher NL.
The Blood Proteoform Atlas: A reference map of proteoforms in human hematopoietic cells.
Science. 2022 375(6579):411-418.
PubMed: 35084980 DOI: 10.1126/science.aaz5284
813 Kustatscher G, Collins T, Gingras AC, Guo T, Hermjakob H, Ideker T, Lilley KS, Lundberg E, Marcotte EM, Ralser M, Rappsilber J.
An open invitation to the Understudied Proteins Initiative.
Nat Biotechnol. 2022 40(6):815-817.
PubMed: 35534555 DOI: 10.1038/s41587-022-01316-z
812 Mund A, Coscia F, Kriston A, Hollandi R, Kovács F, Brunner AD, Migh E, Schweizer L, Santos A, Bzorek M, Naimy S, Rahbek-Gjerdrum LM, Dyring-Andersen B, Bulkescher J, Lukas C, Eckert MA, Lengyel E, Gnann C, Lundberg E, Horvath P, Mann M.
Deep Visual Proteomics defines single-cell identity and heterogeneity.
Nat Biotechnol. 2022 40(8):1231-1240.
PubMed: 35590073 DOI: 10.1038/s41587-022-01302-5
811 Burnum-Johnson KE, Conrads TP, Drake RR, Herr AE, Iyengar R, Kelly RT, Lundberg E, MacCoss MJ, Naba A, Nolan GP, Pevzner PA, Rodland KD, Sechi S, Slavov N, Spraggins JM, Van Eyk JE, Vidal M, Vogel C, Walt DR, Kelleher NL.
New Views of Old Proteins: Clarifying the Enigmatic Proteome.
Mol Cell Proteomics. 2022 21(7):100254.
PubMed: 35654359 DOI: 10.1016/j.mcpro.2022.100254
810 Moffitt JR, Lundberg E, Heyn H.
The emerging landscape of spatial profiling technologies.
Nat Rev Genet. 2022 Epub ahead of print
PubMed: 35859028 DOI: 10.1038/s41576-022-00515-3
809 Andrews B, Chang JB, Collinson L, Li D, Lundberg E, Mahamid J, Manley S, Mhlanga M, Nakano A, Schöneberg J, Van Valen D, Wu T', Zaritsky A.
Imaging cell biology.
Nat Cell Biol. 2022 24(8):1180-1185.
PubMed: 35896733 DOI: 10.1038/s41556-022-00960-6
808 Le T, Winsnes CF, Axelsson U, Xu H, Mohanakrishnan Kaimal J, Mahdessian D, Dai S, Makarov IS, Ostankovich V, Xu Y, Benhamou E, Henkel C, Solovyev RA, Banić N, Bošnjak V, Bošnjak A, Miličević A, Ouyang W, Lundberg E.
Analysis of the Human Protein Atlas Weakly Supervised Single-Cell Classification competition.
Nat Methods. 2022 19(10):1221-1229.
PubMed: 36175767 DOI: 10.1038/s41592-022-01606-z
807 Han L, Wei X, Liu C, Volpe G, Zhuang Z, Zou X, Wang Z, Pan T, Yuan Y, Zhang X, Fan P, Guo P, Lai Y, Lei Y, Liu X, Yu F, Shangguan S, Lai G, Deng Q, Liu Y, Wu L, Shi Q, Yu H, Huang Y, Cheng M, Xu J, Liu Y, Wang M, Wang C, Zhang Y, Xie D, Yang Y, Yu Y, Zheng H, Wei Y, Huang F, Lei J, Huang W, Zhu Z, Lu H, Wang B, Wei X, Chen F, Yang T, Du W, Chen J, Xu S, An J, Ward C, Wang Z, Pei Z, Wong CW, Liu X, Zhang H, Liu M, Qin B, Schambach A, Isern J, Feng L, Liu Y, Guo X, Liu Z, Sun Q, Maxwell PH, Barker N, Muñoz-Cánoves P, Gu Y, Mulder J, Uhlen M, Tan T, Liu S, Yang H, Wang J, Hou Y, Xu X, Esteban MA, Liu L.
Cell transcriptomic atlas of the non-human primate Macaca fascicularis.
Nature. 2022 604(7907):723-731.
PubMed: 35418686 DOI: 10.1038/s41586-022-04587-3
806 Chen A, Liao S, Cheng M, Ma K, Wu L, Lai Y, Qiu X, Yang J, Xu J, Hao S, Wang X, Lu H, Chen X, Liu X, Huang X, Li Z, Hong Y, Jiang Y, Peng J, Liu S, Shen M, Liu C, Li Q, Yuan Y, Wei X, Zheng H, Feng W, Wang Z, Liu Y, Wang Z, Yang Y, Xiang H, Han L, Qin B, Guo P, Lai G, Muñoz-Cánoves P, Maxwell PH, Thiery JP, Wu QF, Zhao F, Chen B, Li M, Dai X, Wang S, Kuang H, Hui J, Wang L, Fei JF, Wang O, Wei X, Lu H, Wang B, Liu S, Gu Y, Ni M, Zhang W, Mu F, Yin Y, Yang H, Lisby M, Cornall RJ, Mulder J, Uhlén M, Esteban MA, Li Y, Liu L, Xu X, Wang J.
Spatiotemporal transcriptomic atlas of mouse organogenesis using DNA nanoball-patterned arrays.
Cell. 2022 185(10):1777-1792.e21.
PubMed: 35512705 DOI: 10.1016/j.cell.2022.04.003
805 Wang F, Ding P, Liang X, Ding X, Brandt CB, Sjöstedt E, Zhu J, Bolund S, Zhang L, de Rooij LPMH, Luo L, Wei Y, Zhao W, Lv Z, Haskó J, Li R, Qin Q, Jia Y, Wu W, Yuan Y, Pu M, Wang H, Wu A, Xie L, Liu P, Chen F, Herold J, Kalucka J, Karlsson M, Zhang X, Helmig RB, Fagerberg L, Lindskog C, Pontén F, Uhlen M, Bolund L, Jessen N, Jiang H, Xu X, Yang H, Carmeliet P, Mulder J, Chen D, Lin L, Luo Y.
Endothelial cell heterogeneity and microglia regulons revealed by a pig cell landscape at single-cell level.
Nat Commun. 2022 13(1):3620.
PubMed: 35750885 DOI: 10.1038/s41467-022-31388-z
804 Zhong W, Barde S, Mitsios N, Adori C, Oksvold P, Feilitzen KV, O'Leary L, Csiba L, Hortobágyi T, Szocsics P, Mechawar N, Maglóczky Z, Renner É, Palkovits M, Uhlén M, Mulder J, Hökfelt T.
The neuropeptide landscape of human prefrontal cortex.
Proc Natl Acad Sci U S A. 2022 119(33):e2123146119.
PubMed: 35947618 DOI: 10.1073/pnas.2123146119
803 Leifsdottir K, Jost K, Siljehav V, Thelin EP, Lassarén P, Nilsson P, Haraldsson Á, Eksborg S, Herlenius E.
The cerebrospinal fluid proteome of preterm infants predicts neurodevelopmental outcome.
Front Pediatr. 2022 10():921444.
PubMed: 35928685 DOI: 10.3389/fped.2022.921444
802 Asplund Högelin K, Ruffin N, Pin E, Hober S, Nilsson P, Starvaggi Cucuzza C, Khademi M, Olsson T, Piehl F, Al Nimer F.
B-cell repopulation dynamics and drug pharmacokinetics impact SARS-CoV-2 vaccine efficacy in anti-CD20-treated multiple sclerosis patients.
Eur J Neurol. 2022 Epub ahead of print
PubMed: 35808856 DOI: 10.1111/ene.15492
801 Blom K, Marking U, Havervall S, Norin NG, Gordon M, García M, Tecleab T, Christ W, Forsell M, Phillipson M, Nilsson P, Mangsbo S, Hober S, Åberg M, Klingström J, Thålin C.
Immune responses after omicron infection in triple-vaccinated health-care workers with and without previous SARS-CoV-2 infection.
Lancet Infect Dis. 2022 22(7):943-945.
PubMed: 35691303 DOI: 10.1016/S1473-3099(22)00362-0
800 Bradley F, Franzén Boger M, Kaldhusdal V, Åhlberg A, Edfeldt G, Lajoie J, Bergström S, Omollo K, Damdimopoulos A, Czarnewski P, Månberg A, Oyugi J, Kimani J, Nilsson P, Fowke K, Tjernlund A, Broliden K.
Multi-omics analysis of the cervical epithelial integrity of women using depot medroxyprogesterone acetate.
PLoS Pathog. 2022 18(5):e1010494.
PubMed: 35533147 DOI: 10.1371/journal.ppat.1010494
799 Bronge M, Högelin KA, Thomas OG, Ruhrmann S, Carvalho-Queiroz C, Nilsson OB, Kaiser A, Zeitelhofer M, Holmgren E, Linnerbauer M, Adzemovic MZ, Hellström C, Jelcic I, Liu H, Nilsson P, Hillert J, Brundin L, Fink K, Kockum I, Tengvall K, Martin R, Tegel H, Gräslund T, Al Nimer F, Guerreiro-Cacais AO, Khademi M, Gafvelin G, Olsson T, Grönlund H.
Identification of four novel T cell autoantigens and personal autoreactive profiles in multiple sclerosis.
Sci Adv. 2022 8(17):eabn1823.
PubMed: 35476434 DOI: 10.1126/sciadv.abn1823
798 Havervall S, Marking U, Greilert-Norin N, Gordon M, Ng H, Christ W, Phillipson M, Nilsson P, Hober S, Blom K, Klingström J, Mangsbo S, Åberg M, Thålin C.
Impact of SARS-CoV-2 infection on vaccine-induced immune responses over time.
Clin Transl Immunology. 2022 11(4):e1388.
PubMed: 35444806 DOI: 10.1002/cti2.1388
797 Laurén I, Havervall S, Ng H, Lord M, Pettke A, Greilert-Norin N, Gabrielsson L, Chourlia A, Amoêdo-Leite C, Josyula VS, Eltahir M, Kerzeli I, Falk AJ, Hober J, Christ W, Wiberg A, Hedhammar M, Tegel H, Burman J, Xu F, Pin E, Månberg A, Klingström J, Christoffersson G, Hober S, Nilsson P, Philipson M, Dönnes P, Lindsay R, Thålin C, Mangsbo S.
Long-term SARS-CoV-2-specific and cross-reactive cellular immune responses correlate with humoral responses, disease severity, and symptomatology.
Immun Inflamm Dis. 2022 10(4):e595.
PubMed: 35349756 DOI: 10.1002/iid3.595
796 Marking U, Havervall S, Greilert-Norin N, Ng H, Blom K, Nilsson P, Phillipson M, Hober S, Nilsson C, Mangsbo S, Christ W, Klingström J, Gordon M, Åberg M, Thålin C.
Duration of SARS-CoV-2 Immune Responses Up to Six Months Following Homologous or Heterologous Primary Immunization with ChAdOx1 nCoV-19 and BNT162b2 mRNA Vaccines.
Vaccines (Basel). 2022 10(3):.
PubMed: 35334989 DOI: 10.3390/vaccines10030359
795 Leifsdottir K, Thelin EP, Lassarén P, Siljehav V, Nilsson P, Eksborg S, Herlenius E.
Proteomic profiles in cerebrospinal fluid predicted death and disability in term infants with perinatal asphyxia: A pilot study.
Acta Paediatr. 2022 111(5):961-970.
PubMed: 35106835 DOI: 10.1111/apa.16277
794 Healy K, Pin E, Chen P, Söderdahl G, Nowak P, Mielke S, Hansson L, Bergman P, Smith CIE, Ljungman P, Valentini D, Blennow O, Österborg A, Gabarrini G, Al-Manei K, Alkharaan H, Sobkowiak MJ, Yousef J, Mravinacova S, Cuapio A, Xu X, Akber M, Loré K, Hellström C, Muschiol S, Bogdanovic G, Buggert M, Ljunggren HG, Hober S, Nilsson P, Aleman S, Sällberg Chen M.
Salivary IgG to SARS-CoV-2 indicates seroconversion and correlates to serum neutralization in mRNA-vaccinated immunocompromised individuals.
Med (N Y). 2022 3(2):137-153.e3.
PubMed: 35075450 DOI: 10.1016/j.medj.2022.01.001
793 Juanes-Velasco P, Galicia N, Pin E, Jara-Acevedo R, Carabias-Sánchez J, García-Valiente R, Lecrevisse Q, Pedreira CE, Gongora R, Sanchez-Santos JM, Lorenzo-Gil H, Landeira-Viñuela A, Bareke H, Orfao A, Nilsson P, Fuentes M.
Deciphering Biomarkers for Leptomeningeal Metastasis in Malignant Hemopathies (Lymphoma/Leukemia) Patients by Comprehensive Multipronged Proteomics Characterization of Cerebrospinal Fluid.
Cancers (Basel). 2022 14(2):.
PubMed: 35053611 DOI: 10.3390/cancers14020449
792 Havervall S, Jernbom Falk A, Klingström J, Ng H, Greilert-Norin N, Gabrielsson L, Salomonsson AC, Isaksson E, Rudberg AS, Hellström C, Andersson E, Olofsson J, Skoglund L, Yousef J, Pin E, Christ W, Olausson M, Hedhammar M, Tegel H, Mangsbo S, Phillipson M, Månberg A, Hober S, Nilsson P, Thålin C.
SARS-CoV-2 induces a durable and antigen specific humoral immunity after asymptomatic to mild COVID-19 infection.
PLoS One. 2022 17(1):e0262169.
PubMed: 35020778 DOI: 10.1371/journal.pone.0262169
791 Marabita F, James T, Karhu A, Virtanen H, Kettunen K, Stenlund H, Boulund F, Hellström C, Neiman M, Mills R, Perheentupa T, Laivuori H, Helkkula P, Byrne M, Jokinen I, Honko H, Kallonen A, Ermes M, Similä H, Lindholm M, Widén E, Ripatti S, Perälä-Heape M, Engstrand L, Nilsson P, Moritz T, Miettinen T, Sallinen R, Kallioniemi O.
Multiomics and digital monitoring during lifestyle changes reveal independent dimensions of human biology and health.
Cell Syst. 2022 13(3):241-255.e7.
PubMed: 34856119 DOI: 10.1016/j.cels.2021.11.001
790 Wesolowska-Andersen A, Brorsson CA, Bizzotto R, Mari A, Tura A, Koivula R, Mahajan A, Vinuela A, Tajes JF, Sharma S, Haid M, Prehn C, Artati A, Hong MG, Musholt PB, Kurbasic A, De Masi F, Tsirigos K, Pedersen HK, Gudmundsdottir V, Thomas CE, Banasik K, Jennison C, Jones A, Kennedy G, Bell J, Thomas L, Frost G, Thomsen H, Allin K, Hansen TH, Vestergaard H, Hansen T, Rutters F, Elders P, t'Hart L, Bonnefond A, Canouil M, Brage S, Kokkola T, Heggie A, McEvoy D, Hattersley A, McDonald T, Teare H, Ridderstrale M, Walker M, Forgie I, Giordano GN, Froguel P, Pavo I, Ruetten H, Pedersen O, Dermitzakis E, Franks PW, Schwenk JM, Adamski J, Pearson E, McCarthy MI, Brunak S, IMI DIRECT Consortium.
Four groups of type 2 diabetes contribute to the etiological and clinical heterogeneity in newly diagnosed individuals: An IMI DIRECT study.
Cell Rep Med. 2022 3(1):100477.
PubMed: 35106505 DOI: 10.1016/j.xcrm.2021.100477
789 Thomas CE, Dahl L, Byström S, Chen Y, Uhlén M, Mälarstig A, Czene K, Hall P, Schwenk JM, Gabrielson M.
Circulating proteins reveal prior use of menopausal hormonal therapy and increased risk of breast cancer.
Transl Oncol. 2022 17():101339.
PubMed: 35033985 DOI: 10.1016/j.tranon.2022.101339
788 Yang Z, Macdonald-Dunlop E, Chen J, Zhai R, Li T, Richmond A, Klarić L, Pirastu N, Ning Z, Zheng C, Wang Y, Huang T, He Y, Guo H, Ying K, Gustafsson S, Prins B, Ramisch A, Dermitzakis ET, Png G, Eriksson N, Haessler J, Hu X, Zanetti D, Boutin T, Hwang SJ, Wheeler E, Pietzner M, Raffield LM, Kalnapenkis A, Peters JE, Viñuela A, Gilly A, Elmståhl S, Dedoussis G, Petrie JR, Polašek O, Folkersen L, Chen Y, Yao C, Võsa U, Pairo-Castineira E, Clohisey S, Bretherick AD, Rawlik K, GenOMICC Consortium†, IMI-DIRECT Consortium†, Esko T, Enroth S, Johansson Å, Gyllensten U, Langenberg C, Levy D, Hayward C, Assimes TL, Kooperberg C, Manichaikul AW, Siegbahn A, Wallentin L, Lind L, Zeggini E, Schwenk JM, Butterworth AS, Michaëlsson K, Pawitan Y, Joshi PK, Baillie JK, Mälarstig A, Reiner AP, Wilson JF, Shen X.
Genetic Landscape of the ACE2 Coronavirus Receptor.
Circulation. 2022 145(18):1398-1411.
PubMed: 35387486 DOI: 10.1161/CIRCULATIONAHA.121.057888
787 Katona B, Lindskog C.
The Human Protein Atlas and Antibody-Based Tissue Profiling in Clinical Proteomics.
Methods Mol Biol. 2022 2420():191-206.
PubMed: 34905175 DOI: 10.1007/978-1-0716-1936-0_15
786 Papoutsoglou P, Rodrigues-Junior DM, Morén A, Bergman A, Pontén F, Coulouarn C, Caja L, Heldin CH, Moustakas A.
The noncoding MIR100HG RNA enhances the autocrine function of transforming growth factor β signaling.
Oncogene. 2021 40(21):3748-3765.
PubMed: 33941855 DOI: 10.1038/s41388-021-01803-8
785 Alhaidan Y, Christesen HT, Lundberg E, Balwi MAA, Brusgaard K.
CRISPR/Cas9 Knockout Stimulates the Insulin Secretion Pathway Leading to Excessive Insulin Secretion.
Front Endocrinol (Lausanne). 2021 12():657873.
PubMed: 34177802 DOI: 10.3389/fendo.2021.657873
784 Bayraktar A, Lam S, Altay O, Li X, Yuan M, Zhang C, Arif M, Turkez H, Uhlén M, Shoaie S, Mardinoglu A.
Revealing the Molecular Mechanisms of Alzheimer's Disease Based on Network Analysis.
Int J Mol Sci. 2021 22(21):.
PubMed: 34768988 DOI: 10.3390/ijms222111556
783 Kaynar A, Altay O, Li X, Zhang C, Turkez H, Uhlén M, Shoaie S, Mardinoglu A.
Systems Biology Approaches to Decipher the Underlying Molecular Mechanisms of Glioblastoma Multiforme.
Int J Mol Sci. 2021 22(24):.
PubMed: 34948010 DOI: 10.3390/ijms222413213
782 Yang H, Arif M, Yuan M, Li X, Shong K, Türkez H, Nielsen J, Uhlén M, Borén J, Zhang C, Mardinoglu A.
A network-based approach reveals the dysregulated transcriptional regulation in non-alcoholic fatty liver disease.
iScience. 2021 24(11):103222.
PubMed: 34712920 DOI: 10.1016/j.isci.2021.103222
781 Razzaq M, Iglesias MJ, Ibrahim-Kosta M, Goumidi L, Soukarieh O, Proust C, Roux M, Suchon P, Boland A, Daiain D, Olaso R, Havervall S, Thalin C, Butler L, Deleuze JF, Odeberg J, Morange PE, Trégouët DA.
An artificial neural network approach integrating plasma proteomics and genetic data identifies PLXNA4 as a new susceptibility locus for pulmonary embolism.
Sci Rep. 2021 11(1):14015.
PubMed: 34234248 DOI: 10.1038/s41598-021-93390-7
780 Lam S, Hartmann N, Benfeitas R, Zhang C, Arif M, Turkez H, Uhlén M, Englert C, Knight R, Mardinoglu A.
Systems Analysis Reveals Ageing-Related Perturbations in Retinoids and Sex Hormones in Alzheimer's and Parkinson's Diseases.
Biomedicines. 2021 9(10):.
PubMed: 34680427 DOI: 10.3390/biomedicines9101310
779 Mailer RK, Allende M, Heestermans M, Schweizer M, Deppermann C, Frye M, Pula G, Odeberg J, Gelderblom M, Rose-John S, Sickmann A, Blankenberg S, Huber TB, Kubisch C, Maas C, Gambaryan S, Firsov D, Stavrou EX, Butler LM, Renné T.
Xenotropic and polytropic retrovirus receptor 1 regulates procoagulant platelet polyphosphate.
Blood. 2021 137(10):1392-1405.
PubMed: 32932519 DOI: 10.1182/blood.2019004617
778 Tebani A, Jotanovic J, Hekmati N, Sivertsson Å, Gudjonsson O, Edén Engström B, Wikström J, Uhlèn M, Casar-Borota O, Pontén F.
Annotation of pituitary neuroendocrine tumors with genome-wide expression analysis.
Acta Neuropathol Commun. 2021 9(1):181.
PubMed: 34758873 DOI: 10.1186/s40478-021-01284-6
777 Bergström S, Öijerstedt L, Remnestål J, Olofsson J, Ullgren A, Seelaar H, van Swieten JC, Synofzik M, Sanchez-Valle R, Moreno F, Finger E, Masellis M, Tartaglia C, Vandenberghe R, Laforce R, Galimberti D, Borroni B, Butler CR, Gerhard A, Ducharme S, Rohrer JD, Månberg A, Graff C, Nilsson P, Genetic Frontotemporal Dementia Initiative (GENFI).
A panel of CSF proteins separates genetic frontotemporal dementia from presymptomatic mutation carriers: a GENFI study.
Mol Neurodegener. 2021 16(1):79.
PubMed: 34838088 DOI: 10.1186/s13024-021-00499-4
776 Christopher JA, Stadler C, Martin CE, Morgenstern M, Pan Y, Betsinger CN, Rattray DG, Mahdessian D, Gingras AC, Warscheid B, Lehtiö J, Cristea IM, Foster LJ, Emili A, Lilley KS.
Subcellular proteomics.
Nat Rev Methods Primers. 2021 1():.
PubMed: 34549195 DOI: 10.1038/s43586-021-00029-y
775 Mena J, Alloza I, Tulloch Navarro R, Aldekoa A, Díez García J, Villanueva Etxebarria A, Lindskog C, Antigüedad A, Boyero S, Mendibe-Bilbao MDM, Álvarez de Arcaya A, Sánchez Menoyo JL, Midaglia L, Villarrubia N, Malhotra S, Montalban X, Villar LM, Comabella M, Vandenbroeck K.
Genomic Multiple Sclerosis Risk Variants Modulate the Expression of the - Gene Region in Immature Dendritic Cells.
Front Immunol. 2021 12():816930.
PubMed: 35111166 DOI: 10.3389/fimmu.2021.816930
774 Lundberg E, Funke J, Uhlmann V, Gerlich D, Walter T, Carpenter A, Coehlo LP.
Which image-based phenotypes are most promising for using AI to understand cellular functions and why?
Cell Syst. 2021 12(5):384-387.
PubMed: 34015259 DOI: 10.1016/j.cels.2021.04.012
773 Qin Y, Huttlin EL, Winsnes CF, Gosztyla ML, Wacheul L, Kelly MR, Blue SM, Zheng F, Chen M, Schaffer LV, Licon K, Bäckström A, Vaites LP, Lee JJ, Ouyang W, Liu SN, Zhang T, Silva E, Park J, Pitea A, Kreisberg JF, Gygi SP, Ma J, Harper JW, Yeo GW, Lafontaine DLJ, Lundberg E, Ideker T.
A multi-scale map of cell structure fusing protein images and interactions.
Nature. 2021 600(7889):536-542.
PubMed: 34819669 DOI: 10.1038/s41586-021-04115-9
772 Gultekin O, Gonzalez-Molina J, Hardell E, Moyano-Galceran L, Mitsios N, Mulder J, Kokaraki G, Isaksson A, Sarhan D, Lehti K, Carlson JW.
FOXP3+ T cells in uterine sarcomas are associated with favorable prognosis, low extracellular matrix expression and reduced YAP activation.
NPJ Precis Oncol. 2021 5(1):97.
PubMed: 34799669 DOI: 10.1038/s41698-021-00236-6
771 Tura A, Grespan E, Göbl CS, Koivula RW, Franks PW, Pearson ER, Walker M, Forgie IM, Giordano GN, Pavo I, Ruetten H, Dermitzakis ET, McCarthy MI, Pedersen O, Schwenk JM, Adamski J, De Masi F, Tsirigos KD, Brunak S, Viñuela A, Mahajan A, McDonald TJ, Kokkola T, Vangipurapu J, Cederberg H, Laakso M, Rutters F, Elders PJM, Koopman ADM, Beulens JW, Ridderstråle M, Hansen TH, Allin KH, Hansen T, Vestergaard H, Mari A, IMI DIRECT Consortium.
Profiles of Glucose Metabolism in Different Prediabetes Phenotypes, Classified by Fasting Glycemia, 2-Hour OGTT, Glycated Hemoglobin, and 1-Hour OGTT: An IMI DIRECT Study.
Diabetes. 2021 70(9):2092-2106.
PubMed: 34233929 DOI: 10.2337/db21-0227
770 Wu C, Borné Y, Gao R, López Rodriguez M, Roell WC, Wilson JM, Regmi A, Luan C, Aly DM, Peter A, Machann J, Staiger H, Fritsche A, Birkenfeld AL, Tao R, Wagner R, Canouil M, Hong MG, Schwenk JM, Ahlqvist E, Kaikkonen MU, Nilsson P, Shore AC, Khan F, Natali A, Melander O, Orho-Melander M, Nilsson J, Häring HU, Renström E, Wollheim CB, Engström G, Weng J, Pearson ER, Franks PW, White MF, Duffin KL, Vaag AA, Laakso M, Stefan N, Groop L, De Marinis Y.
Elevated circulating follistatin associates with an increased risk of type 2 diabetes.
Nat Commun. 2021 12(1):6486.
PubMed: 34759311 DOI: 10.1038/s41467-021-26536-w
769 Bauer W, Weber M, Diehl-Wiesenecker E, Galtung N, Prpic M, Somasundaram R, Tauber R, Schwenk JM, Micke P, Kappert K.
Plasma Proteome Fingerprints Reveal Distinctiveness and Clinical Outcome of SARS-CoV-2 Infection.
Viruses. 2021 13(12):.
PubMed: 34960725 DOI: 10.3390/v13122456
768 Kotol D, Hober A, Strandberg L, Svensson AS, Uhlén M, Edfors F.
Targeted proteomics analysis of plasma proteins using recombinant protein standards for addition only workflows.
Biotechniques. 2021 71(3):473-483.
PubMed: 34431357 DOI: 10.2144/btn-2021-0047
767 Digre A, Lindskog C.
The Human Protein Atlas-Spatial localization of the human proteome in health and disease.
Protein Sci. 2021 30(1):218-233.
PubMed: 33146890 DOI: 10.1002/pro.3987
766 Jamin SP, Hikmet F, Mathieu R, Jégou B, Lindskog C, Chalmel F, Primig M.
Combined RNA/tissue profiling identifies novel Cancer/testis genes.
Mol Oncol. 2021 15(11):3003-3023.
PubMed: 33426787 DOI: 10.1002/1878-0261.12900
765 Egevad L, Delahunt B, Samaratunga H, Tsuzuki T, Olsson H, Ström P, Lindskog C, Häkkinen T, Kartasalo K, Eklund M, Ruusuvuori P.
Interobserver reproducibility of perineural invasion of prostatic adenocarcinoma in needle biopsies.
Virchows Arch. 2021 478(6):1109-1116.
PubMed: 33534005 DOI: 10.1007/s00428-021-03039-z
764 Abdulla M, Alexsson A, Sundström C, Ladenvall C, Mansouri L, Lindskog C, Berglund M, Cavelier L, Enblad G, Hollander P, Amini RM.
PD-L1 and IDO1 are potential targets for treatment in patients with primary diffuse large B-cell lymphoma of the CNS.
Acta Oncol. 2021 60(4):531-538.
PubMed: 33579170 DOI: 10.1080/0284186X.2021.1881161
763 Micke P, Strell C, Mattsson J, Martín-Bernabé A, Brunnström H, Huvila J, Sund M, Wärnberg F, Ponten F, Glimelius B, Hrynchyk I, Mauchanski S, Khelashvili S, Garcia-Vicién G, Molleví DG, Edqvist PH, O Reilly A, Corvigno S, Dahlstrand H, Botling J, Segersten U, Krzyzanowska A, Bjartell A, Elebro J, Heby M, Lundgren S, Hedner C, Borg D, Brändstedt J, Sartor H, Malmström PU, Johansson M, Nodin B, Backman M, Lindskog C, Jirström K, Mezheyeuski A.
The prognostic impact of the tumour stroma fraction: A machine learning-based analysis in 16 human solid tumour types.
EBioMedicine. 2021 65():103269.
PubMed: 33706249 DOI: 10.1016/j.ebiom.2021.103269
762 Olpe C, Khamis D, Chukanova M, Skoufou-Papoutsaki N, Kemp R, Marks K, Tatton C, Lindskog C, Nicholson A, Brunton-Sim R, Malhotra S, Ten Hoopen R, Stanley R, Winton DJ, Morrissey E.
A Diffusion-like Process Accommodates New Crypts During Clonal Expansion in Human Colonic Epithelium.
Gastroenterology. 2021 161(2):548-559.e23.
PubMed: 33895166 DOI: 10.1053/j.gastro.2021.04.035
761 Backman M, La Fleur L, Kurppa P, Djureinovic D, Elfving H, Brunnström H, Mattsson JSM, Lindberg A, Pontén V, Eltahir M, Mangsbo S, Gulyas M, Isaksson J, Jirström K, Kärre K, Leandersson K, Mezheyeuski A, Pontén F, Strell C, Lindskog C, Botling J, Micke P.
Infiltration of NK and plasma cells is associated with a distinct immune subset in non-small cell lung cancer.
J Pathol. 2021 255(3):243-256.
PubMed: 34339045 DOI: 10.1002/path.5772
760 Omenn GS, Lane L, Overall CM, Paik YK, Cristea IM, Corrales FJ, Lindskog C, Weintraub S, Roehrl MHA, Liu S, Bandeira N, Srivastava S, Chen YJ, Aebersold R, Moritz RL, Deutsch EW.
Progress Identifying and Analyzing the Human Proteome: 2021 Metrics from the HUPO Human Proteome Project.
J Proteome Res. 2021 20(12):5227-5240.
PubMed: 34670092 DOI: 10.1021/acs.jproteome.1c00590
759 Pablos I, Machado Y, de Jesus HCR, Mohamud Y, Kappelhoff R, Lindskog C, Vlok M, Bell PA, Butler GS, Grin PM, Cao QT, Nguyen JP, Solis N, Abbina S, Rut W, Vederas JC, Szekely L, Szakos A, Drag M, Kizhakkedathu JN, Mossman K, Hirota JA, Jan E, Luo H, Banerjee A, Overall CM.
Mechanistic insights into COVID-19 by global analysis of the SARS-CoV-2 3CL substrate degradome.
Cell Rep. 2021 37(4):109892.
PubMed: 34672947 DOI: 10.1016/j.celrep.2021.109892
758 Garcia-Alonso L, Handfield LF, Roberts K, Nikolakopoulou K, Fernando RC, Gardner L, Woodhams B, Arutyunyan A, Polanski K, Hoo R, Sancho-Serra C, Li T, Kwakwa K, Tuck E, Lorenzi V, Massalha H, Prete M, Kleshchevnikov V, Tarkowska A, Porter T, Mazzeo CI, van Dongen S, Dabrowska M, Vaskivskyi V, Mahbubani KT, Park JE, Jimenez-Linan M, Campos L, Kiselev VY, Lindskog C, Ayuk P, Prigmore E, Stratton MR, Saeb-Parsy K, Moffett A, Moore L, Bayraktar OA, Teichmann SA, Turco MY, Vento-Tormo R.
Mapping the temporal and spatial dynamics of the human endometrium in vivo and in vitro.
Nat Genet. 2021 53(12):1698-1711.
PubMed: 34857954 DOI: 10.1038/s41588-021-00972-2
757 Ghoshal B, Hikmet F, Pineau C, Tucker A, Lindskog C.
DeepHistoClass: A Novel Strategy for Confident Classification of Immunohistochemistry Images Using Deep Learning.
Mol Cell Proteomics. 2021 20():100140.
PubMed: 34425263 DOI: 10.1016/j.mcpro.2021.100140
756 Deutsch EW, Omenn GS, Sun Z, Maes M, Pernemalm M, Palaniappan KK, Letunica N, Vandenbrouck Y, Brun V, Tao SC, Yu X, Geyer PE, Ignjatovic V, Moritz RL, Schwenk JM.
Advances and Utility of the Human Plasma Proteome.
J Proteome Res. 2021 Epub ahead of print
PubMed: 34672606 DOI: 10.1021/acs.jproteome.1c00657
755 Iglesias MJ, Schwenk JM, Odeberg J.
Affinity Proteomics Assays for Cardiovascular and Atherosclerotic Disease Biomarkers.
Methods Mol Biol. 2021 2344():163-179.
PubMed: 34115359 DOI: 10.1007/978-1-0716-1562-1_12
754 Bendes A, Dale M, Mattsson C, Dodig-Crnković T, Iglesias MJ, Schwenk JM, Fredolini C.
Bead-Based Assays for Validating Proteomic Profiles in Body Fluids.
Methods Mol Biol. 2021 2344():65-78.
PubMed: 34115352 DOI: 10.1007/978-1-0716-1562-1_5
753 Gummesson A, Björnson E, Fagerberg L, Zhong W, Tebani A, Edfors F, Schmidt C, Lundqvist A, Adiels M, Bäckhed F, Schwenk JM, Jansson PA, Uhlén M, Bergström G.
Longitudinal plasma protein profiling of newly diagnosed type 2 diabetes.
EBioMedicine. 2021 63():103147.
PubMed: 33279861 DOI: 10.1016/j.ebiom.2020.103147
752 Stockfelt M, Hong MG, Hesselmar B, Adlerberth I, Wold AE, Schwenk JM, Lundell AC, Rudin A.
Circulating proteins associated with allergy development in infants-an exploratory analysis.
Clin Proteomics. 2021 18(1):11.
PubMed: 33722194 DOI: 10.1186/s12014-021-09318-w
751 Roxhed N, Bendes A, Dale M, Mattsson C, Hanke L, Dodig-Crnković T, Christian M, Meineke B, Elsässer S, Andréll J, Havervall S, Thålin C, Eklund C, Dillner J, Beck O, Thomas CE, McInerney G, Hong MG, Murrell B, Fredolini C, Schwenk JM.
Multianalyte serology in home-sampled blood enables an unbiased assessment of the immune response against SARS-CoV-2.
Nat Commun. 2021 12(1):3695.
PubMed: 34140485 DOI: 10.1038/s41467-021-23893-4
750 Zeybel M, Altay O, Arif M, Li X, Yang H, Fredolini C, Akyildiz M, Saglam B, Gonenli MG, Ural D, Kim W, Schwenk JM, Zhang C, Shoaie S, Nielsen J, Uhlén M, Borén J, Mardinoglu A.
Combined metabolic activators therapy ameliorates liver fat in nonalcoholic fatty liver disease patients.
Mol Syst Biol. 2021 17(10):e10459.
PubMed: 34694070 DOI: 10.15252/msb.202110459
749 Zhong W, Altay O, Arif M, Edfors F, Doganay L, Mardinoglu A, Uhlén M, Fagerberg L.
Next generation plasma proteome profiling of COVID-19 patients with mild to moderate symptoms
EBioMedicine 2021 In Press
748 Gerrits E, Brouwer N, Kooistra SM, Woodbury ME, Vermeiren Y, Lambourne M, Mulder J, Kummer M, Möller T, Biber K, Dunnen WFAD, De Deyn PP, Eggen BJL, Boddeke EWGM.
Distinct amyloid-β and tau-associated microglia profiles in Alzheimer's disease.
Acta Neuropathol. 2021 141(5):681-696.
PubMed: 33609158 DOI: 10.1007/s00401-021-02263-w
747 Mulder J, Lindqvist I, Rasmusson AJ, Husén E, Rönnelid J, Kumlien E, Rostami E, Virhammar J, Cunningham JL.
Indirect immunofluorescence for detecting anti-neuronal autoimmunity in CSF after COVID-19 - Possibilities and pitfalls.
Brain Behav Immun. 2021 94():473-474.
PubMed: 33631284 DOI: 10.1016/j.bbi.2021.02.013
746 Huang J, Lin L, Dong Z, Yang L, Zheng T, Gu W, Zhang Y, Yin T, Sjöstedt E, Mulder J, Uhlén M, Kristiansen K, Bolund L, Luo Y.
A porcine brain-wide RNA editing landscape.
Commun Biol. 2021 4(1):717.
PubMed: 34112917 DOI: 10.1038/s42003-021-02238-3
745 Mulder J, Feresiadou A, Fällmar D, Frithiof R, Virhammar J, Rasmusson A, Rostami E, Kumlien E, Cunningham JL.
Autoimmune Encephalitis Presenting With Malignant Catatonia in a 40-Year-Old Male Patient With COVID-19.
Am J Psychiatry. 2021 178(6):485-489.
PubMed: 34154381 DOI: 10.1176/appi.ajp.2020.20081236
744 Adori C, Daraio T, Kuiper R, Barde S, Horvathova L, Yoshitake T, Ihnatko R, Valladolid-Acebes I, Vercruysse P, Wellendorf AM, Gramignoli R, Bozoky B, Kehr J, Theodorsson E, Cancelas JA, Mravec B, Jorns C, Ellis E, Mulder J, Uhlén M, Bark C, Hökfelt T.
Disorganization and degeneration of liver sympathetic innervations in nonalcoholic fatty liver disease revealed by 3D imaging.
Sci Adv. 2021 7(30):.
PubMed: 34290096 DOI: 10.1126/sciadv.abg5733
743 Iglesias MJ, Kruse LD, Sanchez-Rivera L, Enge L, Dusart P, Hong MG, Uhlén M, Renné T, Schwenk JM, Bergstrom G, Odeberg J, Butler LM.
Identification of Endothelial Proteins in Plasma Associated With Cardiovascular Risk Factors.
Arterioscler Thromb Vasc Biol. 2021 ():ATVBAHA121316779.
PubMed: 34706560 DOI: 10.1161/ATVBAHA.121.316779
742 Gnann C, Cesnik AJ, Lundberg E.
Illuminating Non-genetic Cellular Heterogeneity with Imaging-Based Spatial Proteomics.
Trends Cancer. 2021 7(4):278-282.
PubMed: 33436349 DOI: 10.1016/j.trecan.2020.12.006
741 Rozenblatt-Rosen O, Shin JW, Rood JE, Hupalowska A, Human Cell Atlas Standards and Technology Working Group, Regev A, Heyn H.
Building a high-quality Human Cell Atlas.
Nat Biotechnol. 2021 39(2):149-153.
PubMed: 33500565 DOI: 10.1038/s41587-020-00812-4
740 Pinkard H, Stuurman N, Ivanov IE, Anthony NM, Ouyang W, Li B, Yang B, Tsuchida MA, Chhun B, Zhang G, Mei R, Anderson M, Shepherd DP, Hunt-Isaak I, Dunn RL, Jahr W, Kato S, Royer LA, Thiagarajah JR, Eliceiri KW, Lundberg E, Mehta SB, Waller L.
Pycro-Manager: open-source software for customized and reproducible microscope control.
Nat Methods. 2021 18(3):226-228.
PubMed: 33674797 DOI: 10.1038/s41592-021-01087-6
739 Gómez-de-Mariscal E, García-López-de-Haro C, Ouyang W, Donati L, Lundberg E, Unser M, Muñoz-Barrutia A, Sage D.
DeepImageJ: A user-friendly environment to run deep learning models in ImageJ.
Nat Methods. 2021 18(10):1192-1195.
PubMed: 34594030 DOI: 10.1038/s41592-021-01262-9
738 Mikus M, Zandian A, Sjöberg R, Hamsten C, Forsström B, Andersson M, Greiff L, Uhlén M, Levin M, Nilsson P, van Hage M, Ohlin M.
Allergome-wide peptide microarrays enable epitope deconvolution in allergen-specific immunotherapy.
J Allergy Clin Immunol. 2021 147(3):1077-1086.
PubMed: 32791163 DOI: 10.1016/j.jaci.2020.08.002
737 Hassan SS, Seigerud Å, Abdirahman R, Arroyo Mühr LS, Nordqvist Kleppe S, Pin E, Månberg A, Hober S, Nilsson P, Engstrand L, Miriam Elfström K, Blomqvist J, Conneryd Lundgren K, Dillner J.
SARS-CoV-2 infections amongst personnel providing home care services for older persons in Stockholm, Sweden.
J Intern Med. 2021 290(2):430-436.
PubMed: 33843090 DOI: 10.1111/joim.13274
736 Månberg A, Skene N, Sanders F, Trusohamn M, Remnestål J, Szczepińska A, Aksoylu IS, Lönnerberg P, Ebarasi L, Wouters S, Lehmann M, Olofsson J, von Gohren Antequera I, Domaniku A, De Schaepdryver M, De Vocht J, Poesen K, Uhlén M, Anink J, Mijnsbergen C, Vergunst-Bosch H, Hübers A, Kläppe U, Rodriguez-Vieitez E, Gilthorpe JD, Hedlund E, Harris RA, Aronica E, Van Damme P, Ludolph A, Veldink J, Ingre C, Nilsson P, Lewandowski SA.
Altered perivascular fibroblast activity precedes ALS disease onset.
Nat Med. 2021 27(4):640-646.
PubMed: 33859435 DOI: 10.1038/s41591-021-01295-9
735 Pin E, Petricoin EF, Cortes N, Bowman TG, Andersson E, Uhlén M, Nilsson P, Caswell SV.
Immunoglobulin A Autoreactivity toward Brain Enriched and Apoptosis-Regulating Proteins in Saliva of Athletes after Acute Concussion and Subconcussive Impacts.
J Neurotrauma. 2021 38(17):2373-2383.
PubMed: 33858214 DOI: 10.1089/neu.2020.7375
734 Lourido L, Balboa-Barreiro V, Ruiz-Romero C, Rego-Pérez I, Camacho-Encina M, Paz-González R, Calamia V, Oreiro N, Nilsson P, Blanco FJ.
A clinical model including protein biomarkers predicts radiographic knee osteoarthritis: a prospective study using data from the Osteoarthritis Initiative.
Osteoarthritis Cartilage. 2021 29(8):1147-1154.
PubMed: 33933586 DOI: 10.1016/j.joca.2021.04.011
733 Alkharaan H, Bayati S, Hellström C, Aleman S, Olsson A, Lindahl K, Bogdanovic G, Healy K, Tsilingaridis G, De Palma P, Hober S, Månberg A, Nilsson P, Pin E, Sällberg Chen M.
Persisting Salivary IgG Against SARS-CoV-2 at 9 Months After Mild COVID-19: A Complementary Approach to Population Surveys.
J Infect Dis. 2021 224(3):407-414.
PubMed: 33978762 DOI: 10.1093/infdis/jiab256
732 Kharlamova N, Dunn N, Bedri SK, Jerling S, Almgren M, Faustini F, Gunnarsson I, Rönnelid J, Pullerits R, Gjertsson I, Lundberg K, Månberg A, Pin E, Nilsson P, Hober S, Fink K, Fogdell-Hahn A.
False Positive Results in SARS-CoV-2 Serological Tests for Samples From Patients With Chronic Inflammatory Diseases.
Front Immunol. 2021 12():666114.
PubMed: 34012450 DOI: 10.3389/fimmu.2021.666114
731 Bergström S, Remnestål J, Yousef J, Olofsson J, Markaki I, Carvalho S, Corvol JC, Kultima K, Kilander L, Löwenmark M, Ingelsson M, Blennow K, Zetterberg H, Nellgård B, Brosseron F, Heneka MT, Bosch B, Sanchez-Valle R, Månberg A, Svenningsson P, Nilsson P.
Multi-cohort profiling reveals elevated CSF levels of brain-enriched proteins in Alzheimer's disease.
Ann Clin Transl Neurol. 2021 8(7):1456-1470.
PubMed: 34129723 DOI: 10.1002/acn3.51402
730 Hober S, Hellström C, Olofsson J, Andersson E, Bergström S, Jernbom Falk A, Bayati S, Mravinacova S, Sjöberg R, Yousef J, Skoglund L, Kanje S, Berling A, Svensson AS, Jensen G, Enstedt H, Afshari D, Xu LL, Zwahlen M, von Feilitzen K, Hanke L, Murrell B, McInerney G, Karlsson Hedestam GB, Lendel C, Roth RG, Skoog I, Svenungsson E, Olsson T, Fogdell-Hahn A, Lindroth Y, Lundgren M, Maleki KT, Lagerqvist N, Klingström J, Da Silva Rodrigues R, Muschiol S, Bogdanovic G, Arroyo Mühr LS, Eklund C, Lagheden C, Dillner J, Sivertsson Å, Havervall S, Thålin C, Tegel H, Pin E, Månberg A, Hedhammar M, Nilsson P.
Systematic evaluation of SARS-CoV-2 antigens enables a highly specific and sensitive multiplex serological COVID-19 assay.
Clin Transl Immunology. 2021 10(7):e1312.
PubMed: 34295471 DOI: 10.1002/cti2.1312
729 Elfström KM, Blomqvist J, Nilsson P, Hober S, Pin E, Månberg A, Pimenoff VN, Arroyo Mühr LS, Lundgren KC, Dillner J.
Differences in risk for SARS-CoV-2 infection among healthcare workers.
Prev Med Rep. 2021 24():101518.
PubMed: 34458081 DOI: 10.1016/j.pmedr.2021.101518
728 Havervall S, Ng H, Jernbom Falk A, Greilert-Norin N, Månberg A, Marking U, Laurén I, Gabrielsson L, Salomonsson AC, Aguilera K, Kihlgren M, Månsson M, Rosell A, Hellström C, Andersson E, Olofsson J, Skoglund L, Yousef J, Pin E, Lord M, Åberg M, Hedhammar M, Tegel H, Dönnes P, Phillipson M, Nilsson P, Klingström J, Mangsbo S, Hober S, Thålin C.
Robust humoral and cellular immune responses and low risk for reinfection at least 8 months following asymptomatic to mild COVID-19.
J Intern Med. 2021 Epub ahead of print
PubMed: 34459525 DOI: 10.1111/joim.13387
727 Asplund Högelin K, Ruffin N, Pin E, Månberg A, Hober S, Gafvelin G, Grönlund H, Nilsson P, Khademi M, Olsson T, Piehl F, Al Nimer F.
Development of humoral and cellular immunological memory against SARS-CoV-2 despite B cell depleting treatment in multiple sclerosis.
iScience. 2021 24(9):103078.
PubMed: 34490414 DOI: 10.1016/j.isci.2021.103078
726 Mangsbo SM, Havervall S, Laurén I, Lindsay R, Jernbom Falk A, Marking U, Lord M, Buggert M, Dönnes P, Christoffersson G, Nilsson P, Hober S, Phillipson M, Klingström J, Thålin C.
An evaluation of a FluoroSpot assay as a diagnostic tool to determine SARS-CoV-2 specific T cell responses.
PLoS One. 2021 16(9):e0258041.
PubMed: 34591918 DOI: 10.1371/journal.pone.0258041
725 San Segundo-Acosta P, Montero-Calle A, Jernbom-Falk A, Alonso-Navarro M, Pin E, Andersson E, Hellström C, Sánchez-Martínez M, Rábano A, Solís-Fernández G, Peláez-García A, Martínez-Useros J, Fernández-Aceñero MJ, Månberg A, Nilsson P, Barderas R.
Multiomics Profiling of Alzheimer's Disease Serum for the Identification of Autoantibody Biomarkers.
J Proteome Res. 2021 20(11):5115-5130.
PubMed: 34628858 DOI: 10.1021/acs.jproteome.1c00630
724 Just D, Rasmusson AJ, Nilsson P, Noreland M, Malmström E, Brodin P, Månberg A, Cunningham JL.
Autoantibodies against the C-terminus of Lipopolysaccharide binding protein are elevated in young adults with psychiatric disease.
Psychoneuroendocrinology. 2021 126():105162.
PubMed: 33578084 DOI: 10.1016/j.psyneuen.2021.105162
723 Dillner J, Elfström KM, Blomqvist J, Engstrand L, Uhlén M, Eklund C, Boulund F, Lagheden C, Hamsten M, Nordqvist-Kleppe S, Seifert M, Hellström C, Olofsson J, Andersson E, Falk AJ, Bergström S, Hultin E, Pin E, Pimenoff VN, Hassan S, Månberg A, Nilsson P, Hedhammar M, Hober S, Mattsson J, Arroyo Mühr LS, Lundgren KC.
High Amounts of SARS-CoV-2 Precede Sickness Among Asymptomatic Health Care Workers.
J Infect Dis. 2021 224(1):14-20.
PubMed: 33580261 DOI: 10.1093/infdis/jiab099
722 Remnestål J, Bergström S, Olofsson J, Sjöstedt E, Uhlén M, Blennow K, Zetterberg H, Zettergren A, Kern S, Skoog I, Nilsson P, Månberg A.
Association of CSF proteins with tau and amyloid β levels in asymptomatic 70-year-olds.
Alzheimers Res Ther. 2021 13(1):54.
PubMed: 33653397 DOI: 10.1186/s13195-021-00789-5
721 Paslawski W, Bergström S, Zhang X, Remnestål J, He Y, Boxer A, Månberg A, Nilsson P, Svenningsson P.
Cerebrospinal Fluid Proteins Altered in Corticobasal Degeneration.
Mov Disord. 2021 36(5):1278-1280.
PubMed: 33660876 DOI: 10.1002/mds.28543
720 Dillner J, Elfström KM, Blomqvist J, Eklund C, Lagheden C, Nordqvist-Kleppe S, Hellström C, Olofsson J, Andersson E, Jernbom Falk A, Bergström S, Hultin E, Pin E, Månberg A, Nilsson P, Hedhammar M, Hober S, Mattsson J, Mühr LSA, Conneryd Lundgren K.
Antibodies to SARS-CoV-2 and risk of past or future sick leave.
Sci Rep. 2021 11(1):5160.
PubMed: 33664279 DOI: 10.1038/s41598-021-84356-w
719 Lourido L, Paz-González R, Ruiz-Romero C, Nilsson P, Blanco FJ.
Serum Proteomic Profiling in Rheumatoid Arthritis by Antibody Suspension Bead Arrays.
Methods Mol Biol. 2021 2259():143-151.
PubMed: 33687712 DOI: 10.1007/978-1-0716-1178-4_8
718 Lindblad C, Pin E, Just D, Al Nimer F, Nilsson P, Bellander BM, Svensson M, Piehl F, Thelin EP.
Fluid proteomics of CSF and serum reveal important neuroinflammatory proteins in blood-brain barrier disruption and outcome prediction following severe traumatic brain injury: a prospective, observational study.
Crit Care. 2021 25(1):103.
PubMed: 33712077 DOI: 10.1186/s13054-021-03503-x
717 Röhl M, Tjernlund A, Lajoie J, Edfeldt G, Bradley F, Bergström S, Kaldhusdal V, Åhlberg A, Månberg A, Omollo K, Boily-Larouche G, Asghar M, Kwon DS, Oyugi J, Kimani J, Nilsson P, Fowke KR, Broliden K.
HIV-Exposed Seronegative Sex Workers Express Low T-Cell Activation and an Intact Ectocervical Tissue Microenvironment.
Vaccines (Basel). 2021 9(3):.
PubMed: 33806390 DOI: 10.3390/vaccines9030217
716 Havervall S, Rosell A, Phillipson M, Mangsbo SM, Nilsson P, Hober S, Thålin C.
Symptoms and Functional Impairment Assessed 8 Months After Mild COVID-19 Among Health Care Workers.
JAMA. 2021 325(19):2015-2016.
PubMed: 33825846 DOI: 10.1001/jama.2021.5612
715 Mikus M, Järnbert-Pettersson H, Johansson C, Nilsson P, Scheynius A, Alm J.
Protein profiles in plasma: Development from infancy to 5 years of age.
Proteomics Clin Appl. 2021 15(4):e2000038.
PubMed: 33830667 DOI: 10.1002/prca.202000038
714 Klevebro S, Bahram F, Elfström KM, Hellberg U, Hober S, Merid SK, Kull I, Nilsson P, Tornvall P, Wang G, Conneryd Lundgren K, Ponzer S, Dillner J, Melén E.
Risk of SARS-CoV-2 exposure among hospital healthcare workers in relation to patient contact and type of care.
Scand J Public Health. 2021 49(7):707-712.
PubMed: 34148454 DOI: 10.1177/14034948211022434
713 Havervall S, Marking U, Greilert-Norin N, Ng H, Gordon M, Salomonsson AC, Hellström C, Pin E, Blom K, Mangsbo S, Phillipson M, Klingström J, Hober S, Nilsson P, Åberg M, Thålin C.
Antibody responses after a single dose of ChAdOx1 nCoV-19 vaccine in healthcare workers previously infected with SARS-CoV-2.
EBioMedicine. 2021 70():103523.
PubMed: 34391088 DOI: 10.1016/j.ebiom.2021.103523
712 Jernbom Falk A, Galletly C, Just D, Toben C, Baune BT, Clark SR, Liu D, Nilsson P, Månberg A, Schubert KO.
Autoantibody profiles associated with clinical features in psychotic disorders.
Transl Psychiatry. 2021 11(1):474.
PubMed: 34518517 DOI: 10.1038/s41398-021-01596-0
711 Blixt L, Bogdanovic G, Buggert M, Gao Y, Hober S, Healy K, Johansson H, Kjellander C, Mravinacova S, Muschiol S, Nilsson P, Palma M, Pin E, Smith CIE, Stromberg O, Sällberg Chen M, Zain R, Hansson L, Österborg A.
Covid-19 in patients with chronic lymphocytic leukemia: clinical outcome and B- and T-cell immunity during 13 months in consecutive patients.
Leukemia. 2021 Epub ahead of print
PubMed: 34564699 DOI: 10.1038/s41375-021-01424-w
710 Mravinacova S, Jönsson M, Christ W, Klingström J, Yousef J, Hellström C, Hedhammar M, Havervall S, Thålin C, Pin E, Tegel H, Nilsson P, Månberg A, Hober S.
A cell-free high throughput assay for assessment of SARS-CoV-2 neutralizing antibodies.
N Biotechnol. 2021 66():46-52.
PubMed: 34628049 DOI: 10.1016/j.nbt.2021.10.002
709 Carapito R, Li R, Helms J, Carapito C, Gujja S, Rolli V, Guimaraes R, Malagon-Lopez J, Spinnhirny P, Lederle A, Mohseninia R, Hirschler A, Muller L, Bastard P, Gervais A, Zhang Q, Danion F, Ruch Y, Schenck M, Collange O, Chamaraux-Tran TN, Molitor A, Pichot A, Bernard A, Tahar O, Bibi-Triki S, Wu H, Paul N, Mayeur S, Larnicol A, Laumond G, Frappier J, Schmidt S, Hanauer A, Macquin C, Stemmelen T, Simons M, Mariette X, Hermine O, Fafi-Kremer S, Goichot B, Drenou B, Kuteifan K, Pottecher J, Mertes PM, Kailasan S, Aman MJ, Pin E, Nilsson P, Thomas A, Viari A, Sanlaville D, Schneider F, Sibilia J, Tharaux PL, Casanova JL, Hansmann Y, Lidar D, Radosavljevic M, Gulcher JR, Meziani F, Moog C, Chittenden TW, Bahram S.
Identification of driver genes for critical forms of COVID-19 in a deeply phenotyped young patient cohort.
Sci Transl Med. 2021 ():eabj7521.
PubMed: 34698500 DOI: 10.1126/scitranslmed.abj7521
708 Mikus MS, Kolmert J, Andersson LI, Östling J, Knowles RG, Gómez C, Ericsson M, Thörngren JO, Khoonsari PE, Dahlén B, Kupczyk M, De Meulder B, Auffray C, Bakke PS, Beghe B, Bel EH, Caruso M, Chanez P, Chawes B, Fowler SJ, Gaga M, Geiser T, Gjomarkaj M, Horváth I, Howarth PH, Johnston SL, Joos G, Krug N, Montuschi P, Musial J, Niżankowska-Mogilnicka E, Olsson HK, Papi A, Rabe KF, Sandström T, Shaw DE, Siafakas NM, Uhlen M, Riley JH, Bates S, Middelveld RJM, Wheelock CE, Chung KF, Adcock IM, Sterk PJ, Djukanovic R, Nilsson P, Dahlén SE, James A, U–BIOPRED (Unbiased Biomarkers for the Prediction of Respiratory Disease outcome) Study Group, BIOAIR (Longitudinal Assessment of Clinical Course and Biomarkers in Severe Chronic Airway Disease) Consortium.
Plasma proteins elevated in severe asthma despite oral steroid use and unrelated to Type-2 inflammation.
Eur Respir J. 2021 Epub ahead of print
PubMed: 34737220 DOI: 10.1183/13993003.00142-2021
707 Altay O, Arif M, Li X, Yang H, Aydın M, Alkurt G, Kim W, Akyol D, Zhang C, Dinler-Doganay G, Turkez H, Shoaie S, Nielsen J, Borén J, Olmuscelik O, Doganay L, Uhlén M, Mardinoglu A.
Combined Metabolic Activators Accelerates Recovery in Mild-to-Moderate COVID-19.
Adv Sci (Weinh). 2021 8(17):e2101222.
PubMed: 34180141 DOI: 10.1002/advs.202101222
706 Arif M, Zhang C, Li X, Güngör C, Çakmak B, Arslantürk M, Tebani A, Özcan B, Subaş O, Zhou W, Piening B, Turkez H, Fagerberg L, Price N, Hood L, Snyder M, Nielsen J, Uhlen M, Mardinoglu A.
iNetModels 2.0: an interactive visualization and database of multi-omics data.
Nucleic Acids Res. 2021 49(W1):W271-W276.
PubMed: 33849075 DOI: 10.1093/nar/gkab254
705 Arif M, Klevstig M, Benfeitas R, Doran S, Turkez H, Uhlén M, Clausen M, Wikström J, Etal D, Zhang C, Levin M, Mardinoglu A, Boren J.
Integrative transcriptomic analysis of tissue-specific metabolic crosstalk after myocardial infarction.
Elife. 2021 10():.
PubMed: 33972017 DOI: 10.7554/eLife.66921
704 Li SL, Pereira RHM, Prete CA, Zarebski AE, Emanuel L, Alves PJH, Peixoto PS, Braga CKV, de Souza Santos AA, de Souza WM, Barbosa RJ, Buss LF, Mendrone A, de Almeida-Neto C, Ferreira SC, Salles NA, Marcilio I, Wu CH, Gouveia N, Nascimento VH, Sabino EC, Faria NR, Messina JP.
Higher risk of death from COVID-19 in low-income and non-White populations of São Paulo, Brazil.
BMJ Glob Health. 2021 6(4):.
PubMed: 33926892 DOI: 10.1136/bmjgh-2021-004959
703 Keskinkiliç B, Shaikh I, Tekin A, Ursu P, Mardinoglu A, Mese EA.
A Resilient Health System in Response to Coronavirus Disease 2019: Experiences of Turkey.
Front Public Health. 2021 8():577021.
PubMed: 33490014 DOI: 10.3389/fpubh.2020.577021
702 Cinici E, Caglar O, Arslan ME, Dilekmen N, Utlu B, Mardinoglu A, Turkez H.
Targeted Gene Candidates for Treatment and Early Diagnosis of Age-Related Macular Degeneration.
Biomed Res Int. 2021 2021():6620900.
PubMed: 33604378 DOI: 10.1155/2021/6620900
701 Rosario D, Bidkhori G, Lee S, Bedarf J, Hildebrand F, Le Chatelier E, Uhlen M, Ehrlich SD, Proctor G, Wüllner U, Mardinoglu A, Shoaie S.
Systematic analysis of gut microbiome reveals the role of bacterial folate and homocysteine metabolism in Parkinson's disease.
Cell Rep. 2021 34(9):108807.
PubMed: 33657381 DOI: 10.1016/j.celrep.2021.108807
700 Li X, Kim W, Juszczak K, Arif M, Sato Y, Kume H, Ogawa S, Turkez H, Boren J, Nielsen J, Uhlen M, Zhang C, Mardinoglu A.
Stratification of patients with clear cell renal cell carcinoma to facilitate drug repositioning.
iScience. 2021 24(7):102722.
PubMed: 34258555 DOI: 10.1016/j.isci.2021.102722
699 Mahdessian D, Cesnik AJ, Gnann C, Danielsson F, Stenström L, Arif M, Zhang C, Le T, Johansson F, Shutten R, Bäckström A, Axelsson U, Thul P, Cho NH, Carja O, Uhlén M, Mardinoglu A, Stadler C, Lindskog C, Ayoglu B, Leonetti MD, Pontén F, Sullivan DP, Lundberg E.
Spatiotemporal dissection of the cell cycle with single-cell proteogenomics.
Nature. 2021 590(7847):649-654.
PubMed: 33627808 DOI: 10.1038/s41586-021-03232-9
698 Alkurt G, Murt A, Aydin Z, Tatli O, Agaoglu NB, Irvem A, Aydin M, Karaali R, Gunes M, Yesilyurt B, Turkez H, Mardinoglu A, Doganay M, Basinoglu F, Seyahi N, Dinler Doganay G, Doganay HL.
Seroprevalence of coronavirus disease 2019 (COVID-19) among health care workers from three pandemic hospitals of Turkey.
PLoS One. 2021 16(3):e0247865.
PubMed: 33657142 DOI: 10.1371/journal.pone.0247865
697 Türkez H, Arslan ME, Sönmez E, Tatar A, Geyikoğlu F, Açikyildiz M, Mardinoğlu A.
Safety Assessments of Nickel Boride Nanoparticles on the Human Pulmonary Alveolar Cells by Using Cell Viability and Gene Expression Analyses.
Biol Trace Elem Res. 2021 199(7):2602-2611.
PubMed: 32909113 DOI: 10.1007/s12011-020-02374-7
696 Turkez H, Tozlu OO, Arslan ME, Mardinoglu A.
Safety and Efficacy Assessments to Take Antioxidants in Glioblastoma Therapy: From In Vitro Experiences to Animal and Clinical Studies.
Neurochem Int. 2021 150():105168.
PubMed: 34450218 DOI: 10.1016/j.neuint.2021.105168
695 Altay O, Zhang C, Turkez H, Nielsen J, Uhlén M, Mardinoglu A.
Revealing the Metabolic Alterations during Biofilm Development of Based on Genome-Scale Metabolic Modeling.
Metabolites. 2021 11(4):.
PubMed: 33916474 DOI: 10.3390/metabo11040221
694 Turkez H, Arslan ME, Tatar A, Mardinoglu A.
Promising potential of boron compounds against Glioblastoma: In Vitro antioxidant, anti-inflammatory and anticancer studies.
Neurochem Int. 2021 149():105137.
PubMed: 34293392 DOI: 10.1016/j.neuint.2021.105137
693 Yazici A, Marinelli L, Cacciatore I, Emsen B, Eusepi P, Di Biase G, Di Stefano A, Mardinoğlu A, Türkez H.
Potential Anticancer Effect of Carvacrol Codrugs on Human Glioblastoma Cells.
Curr Drug Deliv. 2021 18(3):350-356.
PubMed: 33109049 DOI: 10.2174/1567201817666201027123424
692 Doran S, Arif M, Lam S, Bayraktar A, Turkez H, Uhlen M, Boren J, Mardinoglu A.
Multi-omics approaches for revealing the complexity of cardiovascular disease.
Brief Bioinform. 2021 22(5):.
PubMed: 33725119 DOI: 10.1093/bib/bbab061
691 van der Kolk BW, Saari S, Lovric A, Arif M, Alvarez M, Ko A, Miao Z, Sahebekhtiari N, Muniandy M, Heinonen S, Oghabian A, Jokinen R, Jukarainen S, Hakkarainen A, Lundbom J, Kuula J, Groop PH, Tukiainen T, Lundbom N, Rissanen A, Kaprio J, Williams EG, Zamboni N, Mardinoglu A, Pajukanta P, Pietiläinen KH.
Molecular pathways behind acquired obesity: Adipose tissue and skeletal muscle multiomics in monozygotic twin pairs discordant for BMI.
Cell Rep Med. 2021 2(4):100226.
PubMed: 33948567 DOI: 10.1016/j.xcrm.2021.100226
690 Zhao LJ, Li YY, Zhang YT, Fan QQ, Ren HM, Zhang C, Mardinoglu A, Chen WC, Pang JR, Shen DD, Wang JW, Zhao LF, Zhang JY, Wang ZY, Zheng YC, Liu HM.
Lysine demethylase LSD1 delivered via small extracellular vesicles promotes gastric cancer cell stemness.
EMBO Rep. 2021 22(8):e50922.
PubMed: 34060205 DOI: 10.15252/embr.202050922
689 Smati S, Polizzi A, Fougerat A, Ellero-Simatos S, Blum Y, Lippi Y, Régnier M, Laroyenne A, Huillet M, Arif M, Zhang C, Lasserre F, Marrot A, Al Saati T, Wan J, Sommer C, Naylies C, Batut A, Lukowicz C, Fougeray T, Tramunt B, Dubot P, Smith L, Bertrand-Michel J, Hennuyer N, Pradere JP, Staels B, Burcelin R, Lenfant F, Arnal JF, Levade T, Gamet-Payrastre L, Lagarrigue S, Loiseau N, Lotersztajn S, Postic C, Wahli W, Bureau C, Guillaume M, Mardinoglu A, Montagner A, Gourdy P, Guillou H.
Integrative study of diet-induced mouse models of NAFLD identifies PPARα as a sexually dimorphic drug target.
Gut. 2021 Epub ahead of print
PubMed: 33903148 DOI: 10.1136/gutjnl-2020-323323
688 Bosley JR, Björnson E, Zhang C, Turkez H, Nielsen J, Uhlen M, Borén J, Mardinoglu A.
Informing Pharmacokinetic Models With Physiological Data: Oral Population Modeling of L-Serine in Humans.
Front Pharmacol. 2021 12():643179.
PubMed: 34054524 DOI: 10.3389/fphar.2021.643179
687 Arslan ME, Türkez H, Mardinoğlu A.
In vitro neuroprotective effects of farnesene sesquiterpene on alzheimer's disease model of differentiated neuroblastoma cell line.
Int J Neurosci. 2021 131(8):745-754.
PubMed: 32308094 DOI: 10.1080/00207454.2020.1754211
686 Turkez H, Cacciatore I, Marinelli L, Fornasari E, Aslan ME, Cadirci K, Kahraman CY, Caglar O, Tatar A, Di Biase G, Hacimuftuoglu A, Di Stefano A, Mardinoglu A.
Glycyl-L-Prolyl-L-Glutamate Pseudotripeptides for Treatment of Alzheimer's Disease.
Biomolecules. 2021 11(1):.
PubMed: 33478054 DOI: 10.3390/biom11010126
685 Andersson L, Cinato M, Mardani I, Miljanovic A, Arif M, Koh A, Lindbom M, Laudette M, Bollano E, Omerovic E, Klevstig M, Henricsson M, Fogelstrand P, Swärd K, Ekstrand M, Levin M, Wikström J, Doran S, Hyötyläinen T, Sinisalu L, Orešič M, Tivesten Å, Adiels M, Bergo MO, Proia R, Mardinoglu A, Jeppsson A, Borén J, Levin MC.
Glucosylceramide synthase deficiency in the heart compromises β1-adrenergic receptor trafficking.
Eur Heart J. 2021 Epub ahead of print
PubMed: 34297830 DOI: 10.1093/eurheartj/ehab412
684 Zhang C, Wei Y, Mardinoglu A, Zhang P.
Editorial: Application of Systems Biology in Molecular Characterization and Diagnosis of Cancer.
Front Mol Biosci. 2021 8():668146.
PubMed: 34124153 DOI: 10.3389/fmolb.2021.668146
683 Li X, Kim W, Arif M, Gao C, Hober A, Kotol D, Strandberg L, Forsström B, Sivertsson Å, Oksvold P, Turkez H, Grøtli M, Sato Y, Kume H, Ogawa S, Boren J, Nielsen J, Uhlen M, Zhang C, Mardinoglu A.
Discovery of Functional Alternatively Spliced Transcripts in Human Cancers.
Cancers (Basel). 2021 13(2):.
PubMed: 33478099 DOI: 10.3390/cancers13020348
682 Özdemir Ö, Marinelli L, Cacciatore I, Ciulla M, Emsen B, Di Stefano A, Mardinoglu A, Turkez H.
Anticancer effects of novel NSAIDs derivatives on cultured human glioblastoma cells.
Z Naturforsch C J Biosci. 2021 76(7-8):329-335.
PubMed: 32889798 DOI: 10.1515/znc-2020-0093
681 Lam S, Doran S, Yuksel HH, Altay O, Turkez H, Nielsen J, Boren J, Uhlen M, Mardinoglu A.
Addressing the heterogeneity in liver diseases using biological networks.
Brief Bioinform. 2021 22(2):1751-1766.
PubMed: 32201876 DOI: 10.1093/bib/bbaa002
680 Harzandi A, Lee S, Bidkhori G, Saha S, Hendry BM, Mardinoglu A, Shoaie S, Sharpe CC.
Acute kidney injury leading to CKD is associated with a persistence of metabolic dysfunction and hypertriglyceridemia.
iScience. 2021 24(2):102046.
PubMed: 33554059 DOI: 10.1016/j.isci.2021.102046
679 Karlsson M, Zhang C, Méar L, Zhong W, Digre A, Katona B, Sjöstedt E, Butler L, Odeberg J, Dusart P, Edfors F, Oksvold P, von Feilitzen K, Zwahlen M, Arif M, Altay O, Li X, Ozcan M, Mardinoglu A, Fagerberg L, Mulder J, Luo Y, Ponten F, Uhlén M, Lindskog C.
A single-cell type transcriptomics map of human tissues.
Sci Adv. 2021 7(31):.
PubMed: 34321199 DOI: 10.1126/sciadv.abh2169
678 Turanli B, Altay O, Borén J, Turkez H, Nielsen J, Uhlen M, Arga KY, Mardinoglu A.
Systems biology based drug repositioning for development of cancer therapy.
Semin Cancer Biol. 2021 68():47-58.
PubMed: 31568815 DOI: 10.1016/j.semcancer.2019.09.020
677 Aasebø K, Dragomir A, Sundström M, Mezheyeuski A, Edqvist PH, Eide GE, Ponten F, Pfeiffer P, Glimelius B, Sorbye H.
CDX2: A Prognostic Marker in Metastatic Colorectal Cancer Defining a Better Mutated and a Worse Mutated Subgroup.
Front Oncol. 2020 10():8.
PubMed: 32117703 DOI: 10.3389/fonc.2020.00008
676 De Piano M, Manuelli V, Zadra G, Otte J, Edqvist PD, Pontén F, Nowinski S, Niaouris A, Grigoriadis A, Loda M, Van Hemelrijck M, Wells CM.
Lipogenic signalling modulates prostate cancer cell adhesion and migration via modification of Rho GTPases.
Oncogene. 2020 39(18):3666-3679.
PubMed: 32139877 DOI: 10.1038/s41388-020-1243-2
675 Ding M, Tegel H, Sivertsson Å, Hober S, Snijder A, Ormö M, Strömstedt PE, Davies R, Holmberg Schiavone L.
Secretome-Based Screening in Target Discovery.
SLAS Discov. 2020 25(6):535-551.
PubMed: 32425085 DOI: 10.1177/2472555220917113
674 Gudmundsdottir V, Pedersen HK, Mazzoni G, Allin KH, Artati A, Beulens JW, Banasik K, Brorsson C, Cederberg H, Chabanova E, De Masi F, Elders PJ, Forgie I, Giordano GN, Grallert H, Gupta R, Haid M, Hansen T, Hansen TH, Hattersley AT, Heggie A, Hong MG, Jones AG, Koivula R, Kokkola T, Laakso M, Løngreen P, Mahajan A, Mari A, McDonald TJ, McEvoy D, Musholt PB, Pavo I, Prehn C, Ruetten H, Ridderstråle M, Rutters F, Sharma S, Slieker RC, Syed A, Tajes JF, Thomas CE, Thomsen HS, Vangipurapu J, Vestergaard H, Viñuela A, Wesolowska-Andersen A, Walker M, Adamski J, Schwenk JM, McCarthy MI, Pearson E, Dermitzakis E, Franks PW, Pedersen O, Brunak S.
Whole blood co-expression modules associate with metabolic traits and type 2 diabetes: an IMI-DIRECT study.
Genome Med. 2020 12(1):109.
PubMed: 33261667 DOI: 10.1186/s13073-020-00806-6
673 Atabaki-Pasdar N, Ohlsson M, Viñuela A, Frau F, Pomares-Millan H, Haid M, Jones AG, Thomas EL, Koivula RW, Kurbasic A, Mutie PM, Fitipaldi H, Fernandez J, Dawed AY, Giordano GN, Forgie IM, McDonald TJ, Rutters F, Cederberg H, Chabanova E, Dale M, Masi F, Thomas CE, Allin KH, Hansen TH, Heggie A, Hong MG, Elders PJM, Kennedy G, Kokkola T, Pedersen HK, Mahajan A, McEvoy D, Pattou F, Raverdy V, Häussler RS, Sharma S, Thomsen HS, Vangipurapu J, Vestergaard H, 't Hart LM, Adamski J, Musholt PB, Brage S, Brunak S, Dermitzakis E, Frost G, Hansen T, Laakso M, Pedersen O, Ridderstråle M, Ruetten H, Hattersley AT, Walker M, Beulens JWJ, Mari A, Schwenk JM, Gupta R, McCarthy MI, Pearson ER, Bell JD, Pavo I, Franks PW.
Predicting and elucidating the etiology of fatty liver disease: A machine learning modeling and validation study in the IMI DIRECT cohorts.
PLoS Med. 2020 17(6):e1003149.
PubMed: 32559194 DOI: 10.1371/journal.pmed.1003149
672 Persson Skare T, Sjöberg E, Berglund M, Smith RO, Roche FP, Lindskog C, Sander B, Glimelius I, Gholiha AR, Enblad G, Amini RM, Claesson-Welsh L.
Marginal zone lymphoma expression of histidine-rich glycoprotein correlates with improved survival.
EJHaem. 2020 1(1):199-207.
PubMed: 35847718 DOI: 10.1002/jha2.73
671 Ouyang W, Winsnes CF, Hjelmare M, Cesnik AJ, Åkesson L, Xu H, Sullivan DP, Dai S, Lan J, Jinmo P, Galib SM, Henkel C, Hwang K, Poplavskiy D, Tunguz B, Wolfinger RD, Gu Y, Li C, Xie J, Buslov D, Fironov S, Kiselev A, Panchenko D, Cao X, Wei R, Wu Y, Zhu X, Tseng KL, Gao Z, Ju C, Yi X, Zheng H, Kappel C, Lundberg E.
Publisher Correction: Analysis of the Human Protein Atlas Image Classification competition.
Nat Methods. 2020 17(2):241.
PubMed: 31969731 DOI: 10.1038/s41592-020-0734-y
670 Sjöstedt E, Kolnes AJ, Olarescu NC, Mitsios N, Hikmet F, Sivertsson Å, Lindskog C, Øystese KAB, Jørgensen AP, Bollerslev J, Casar-Borota O.
TGFBR3L-An Uncharacterised Pituitary Specific Membrane Protein Detected in the Gonadotroph Cells in Non-Neoplastic and Tumour Tissue.
Cancers (Basel). 2020 13(1):.
PubMed: 33396509 DOI: 10.3390/cancers13010114
669 Signorelli M, Ayoglu B, Johansson C, Lochmüller H, Straub V, Muntoni F, Niks E, Tsonaka R, Persson A, Aartsma-Rus A, Nilsson P, Al-Khalili Szigyarto C, Spitali P.
Longitudinal serum biomarker screening identifies malate dehydrogenase 2 as candidate prognostic biomarker for Duchenne muscular dystrophy.
J Cachexia Sarcopenia Muscle. 2020 11(2):505-517.
PubMed: 31881125 DOI: 10.1002/jcsm.12517
668 Strandberg K, Ayoglu B, Roos A, Reza M, Niks E, Signorelli M, Fasterius E, Pontén F, Lochmüller H, Domingos J, Ala P, Muntoni F, Aartsma-Rus A, Spitali P, Nilsson P, Szigyarto CA.
Blood-derived biomarkers correlate with clinical progression in Duchenne muscular dystrophy.
J Neuromuscul Dis. 2020 7(3):231-246.
PubMed: 32390640 DOI: 10.3233/JND-190454
667 Remnestål J, Öijerstedt L, Ullgren A, Olofsson J, Bergström S, Kultima K, Ingelsson M, Kilander L, Uhlén M, Månberg A, Graff C, Nilsson P.
Altered levels of CSF proteins in patients with FTD, presymptomatic mutation carriers and non-carriers.
Transl Neurodegener. 2020 9(1):27.
PubMed: 32576262 DOI: 10.1186/s40035-020-00198-y
666 Lourido L, Ruiz-Romero C, Picchi F, Diz-Rosales N, Vilaboa-Galán S, Fernández-López C, Tasende JAP, Pérez-Pampín E, Regueiro C, Mera-Varela A, Gonzalez A, Hambardzumyan K, Saevarsdottir S, Nilsson P, Blanco FJ.
Association of serum anti-centromere protein F antibodies with clinical response to infliximab in patients with rheumatoid arthritis: A prospective study.
Semin Arthritis Rheum. 2020 50(5):1101-1108.
PubMed: 32920323 DOI: 10.1016/j.semarthrit.2020.06.010
665 Rudberg AS, Havervall S, Månberg A, Jernbom Falk A, Aguilera K, Ng H, Gabrielsson L, Salomonsson AC, Hanke L, Murrell B, McInerney G, Olofsson J, Andersson E, Hellström C, Bayati S, Bergström S, Pin E, Sjöberg R, Tegel H, Hedhammar M, Phillipson M, Nilsson P, Hober S, Thålin C.
SARS-CoV-2 exposure, symptoms and seroprevalence in healthcare workers in Sweden.
Nat Commun. 2020 11(1):5064.
PubMed: 33033249 DOI: 10.1038/s41467-020-18848-0
664 Markaki I, Bergström S, Tsitsi P, Remnestål J, Månberg A, Hertz E, Paslawski W, Sorjonen K, Uhlén M, Mangone G, Carvalho S, Rascol O, Meissner WG, Magnin E, Wüllner U, Corvol JC, Nilsson P, Svenningsson P.
Cerebrospinal Fluid Levels of Kininogen-1 Indicate Early Cognitive Impairment in Parkinson's Disease.
Mov Disord. 2020 35(11):2101-2106.
PubMed: 33179332 DOI: 10.1002/mds.28192
663 Gaudenzi G, Kumbakumba E, Rasti R, Nanjebe D, Réu P, Nyehangane D, Mårtensson A, Nassejje M, Karlsson J, Mzee J, Nilsson P, Businge S, Loh E, Boum Ii Y, Andersson-Svahn H, Gantelius J, Mwanga-Amumpaire J, Alfvén T.
Point-of-Care Approaches for Meningitis Diagnosis in a Low-Resource Setting (Southwestern Uganda): Observational Cohort Study Protocol of the "PI-POC" Trial.
JMIR Res Protoc. 2020 9(11):e21430.
PubMed: 33146628 DOI: 10.2196/21430
662 Just D, Månberg A, Mitsios N, Stockmeier CA, Rajkowska G, Uhlén M, Mulder J, Feuk L, Cunningham JL, Nilsson P, Carlström EL.
Exploring autoantibody signatures in brain tissue from patients with severe mental illness.
Transl Psychiatry. 2020 10(1):401.
PubMed: 33208725 DOI: 10.1038/s41398-020-01079-8
661 Çadirci K, Özdemir Tozlu Ö, Türkez H, Mardinoğlu A.
The in vitro cytotoxic, genotoxic, and oxidative damage potentials of the oral artificial sweetener aspartame on cultured human blood cells
Turk J Med Sci. 2020 50(2):448-454.
PubMed: 32222132 DOI: 10.3906/sag-2001-113
660 Zhang C, Bjornson E, Arif M, Tebani A, Lovric A, Benfeitas R, Ozcan M, Juszczak K, Kim W, Kim JT, Bidkhori G, Ståhlman M, Bergh PO, Adiels M, Turkez H, Taskinen MR, Bosley J, Marschall HU, Nielsen J, Uhlén M, Borén J, Mardinoglu A.
The acute effect of metabolic cofactor supplementation: a potential therapeutic strategy against non-alcoholic fatty liver disease.
Mol Syst Biol. 2020 16(4):e9495.
PubMed: 32337855 DOI: 10.15252/msb.209495
659 Rosario D, Boren J, Uhlen M, Proctor G, Aarsland D, Mardinoglu A, Shoaie S.
Systems Biology Approaches to Understand the Host-Microbiome Interactions in Neurodegenerative Diseases.
Front Neurosci. 2020 14():716.
PubMed: 32733199 DOI: 10.3389/fnins.2020.00716
658 Chapman MA, Arif M, Emanuelsson EB, Reitzner SM, Lindholm ME, Mardinoglu A, Sundberg CJ.
Skeletal Muscle Transcriptomic Comparison between Long-Term Trained and Untrained Men and Women.
Cell Rep. 2020 31(12):107808.
PubMed: 32579934 DOI: 10.1016/j.celrep.2020.107808
657 Pagoni A, Marinelli L, Di Stefano A, Ciulla M, Turkez H, Mardinoglu A, Vassiliou S, Cacciatore I.
Novel anti-Alzheimer phenol-lipoyl hybrids: Synthesis, physico-chemical characterization, and biological evaluation.
Eur J Med Chem. 2020 186():111880.
PubMed: 31753513 DOI: 10.1016/j.ejmech.2019.111880
656 Küçükdoğru R, Türkez H, Arslan ME, Tozlu ÖÖ, Sönmez E, Mardinoğlu A, Cacciatore I, Di Stefano A.
Neuroprotective effects of boron nitride nanoparticles in the experimental Parkinson's disease model against MPP+ induced apoptosis.
Metab Brain Dis. 2020 35(6):947-957.
PubMed: 32215836 DOI: 10.1007/s11011-020-00559-6
655 Lieven C, Beber ME, Olivier BG, Bergmann FT, Ataman M, Babaei P, Bartell JA, Blank LM, Chauhan S, Correia K, Diener C, Dräger A, Ebert BE, Edirisinghe JN, Faria JP, Feist AM, Fengos G, Fleming RMT, García-Jiménez B, Hatzimanikatis V, van Helvoirt W, Henry CS, Hermjakob H, Herrgård MJ, Kaafarani A, Kim HU, King Z, Klamt S, Klipp E, Koehorst JJ, König M, Lakshmanan M, Lee DY, Lee SY, Lee S, Lewis NE, Liu F, Ma H, Machado D, Mahadevan R, Maia P, Mardinoglu A, Medlock GL, Monk JM, Nielsen J, Nielsen LK, Nogales J, Nookaew I, Palsson BO, Papin JA, Patil KR, Poolman M, Price ND, Resendis-Antonio O, Richelle A, Rocha I, Sánchez BJ, Schaap PJ, Malik Sheriff RS, Shoaie S, Sonnenschein N, Teusink B, Vilaça P, Vik JO, Wodke JAH, Xavier JC, Yuan Q, Zakhartsev M, Zhang C.
MEMOTE for standardized genome-scale metabolic model testing.
Nat Biotechnol. 2020 38(3):272-276.
PubMed: 32123384 DOI: 10.1038/s41587-020-0446-y
654 Zhan C, Bidkhori G, Schwarz H, Malm M, Mebrahtu A, Field R, Sellick C, Hatton D, Varley P, Mardinoglu A, Rockberg J, Chotteau V.
Low Shear Stress Increases Recombinant Protein Production and High Shear Stress Increases Apoptosis in Human Cells.
iScience. 2020 23(11):101653.
PubMed: 33145483 DOI: 10.1016/j.isci.2020.101653
653 Ozcan M, Altay O, Lam S, Turkez H, Aksoy Y, Nielsen J, Uhlen M, Boren J, Mardinoglu A.
Improvement in the Current Therapies for Hepatocellular Carcinoma Using a Systems Medicine Approach.
Adv Biosyst. 2020 4(6):e2000030.
PubMed: 32529800 DOI: 10.1002/adbi.202000030
652 Turkez H, Cacciatore I, Arslan ME, Fornasari E, Marinelli L, Di Stefano A, Mardinoglu A.
Histidyl-Proline Diketopiperazine Isomers as Multipotent Anti-Alzheimer Drug Candidates.
Biomolecules. 2020 10(5):.
PubMed: 32397415 DOI: 10.3390/biom10050737
651 Larsson I, Uhlén M, Zhang C, Mardinoglu A.
Genome-Scale Metabolic Modeling of Glioblastoma Reveals Promising Targets for Drug Development.
Front Genet. 2020 11():381.
PubMed: 32362913 DOI: 10.3389/fgene.2020.00381
650 Sinha M, Mardinoglu A, Ghose J, Singh K.
Editorial: Redox Homeostasis and Cancer.
Oxid Med Cell Longev. 2020 2020():5487381.
PubMed: 33488925 DOI: 10.1155/2020/5487381
649 Beklen H, Gulfidan G, Arga KY, Mardinoglu A, Turanli B.
Drug Repositioning for P-Glycoprotein Mediated Co-Expression Networks in Colorectal Cancer.
Front Oncol. 2020 10():1273.
PubMed: 32903699 DOI: 10.3389/fonc.2020.01273
648 Altay O, Mohammadi E, Lam S, Turkez H, Boren J, Nielsen J, Uhlen M, Mardinoglu A.
Current Status of COVID-19 Therapies and Drug Repositioning Applications.
iScience. 2020 23(7):101303.
PubMed: 32622261 DOI: 10.1016/j.isci.2020.101303
647 Li X, Turanli B, Juszczak K, Kim W, Arif M, Sato Y, Ogawa S, Turkez H, Nielsen J, Boren J, Uhlen M, Zhang C, Mardinoglu A.
Classification of clear cell renal cell carcinoma based on alternative splicing.
Heliyon. 2020 6(2):e03440.
PubMed: 32095654 DOI: 10.1016/j.heliyon.2020.e03440
646 Sayitoglu EC, Georgoudaki AM, Chrobok M, Ozkazanc D, Josey BJ, Arif M, Kusser K, Hartman M, Chinn TM, Potens R, Pamukcu C, Krueger R, Zhang C, Mardinoglu A, Alici E, Temple HT, Sutlu T, Duru AD.
Boosting Natural Killer Cell-Mediated Targeting of Sarcoma Through DNAM-1 and NKG2D.
Front Immunol. 2020 11():40.
PubMed: 32082316 DOI: 10.3389/fimmu.2020.00040
645 Mohammadi E, Benfeitas R, Turkez H, Boren J, Nielsen J, Uhlen M, Mardinoglu A.
Applications of Genome-Wide Screening and Systems Biology Approaches in Drug Repositioning.
Cancers (Basel). 2020 12(9):.
PubMed: 32967266 DOI: 10.3390/cancers12092694
644 Robinson JL, Kocabaş P, Wang H, Cholley PE, Cook D, Nilsson A, Anton M, Ferreira R, Domenzain I, Billa V, Limeta A, Hedin A, Gustafsson J, Kerkhoven EJ, Svensson LT, Palsson BO, Mardinoglu A, Hansson L, Uhlén M, Nielsen J.
An atlas of human metabolism.
Sci Signal. 2020 13(624):.
PubMed: 32209698 DOI: 10.1126/scisignal.aaz1482
643 Choi MJ, Jung SB, Lee SE, Kang SG, Lee JH, Ryu MJ, Chung HK, Chang JY, Kim YK, Hong HJ, Kim H, Kim HJ, Lee CH, Mardinoglu A, Yi HS, Shong M.
An adipocyte-specific defect in oxidative phosphorylation increases systemic energy expenditure and protects against diet-induced obesity in mouse models.
Diabetologia. 2020 63(4):837-852.
PubMed: 31925461 DOI: 10.1007/s00125-019-05082-7
642 Rawshani A, Eliasson B, Rawshani A, Henninger J, Mardinoglu A, Carlsson Å, Sohlin M, Ljungberg M, Hammarstedt A, Rosengren A, Smith U.
Adipose tissue morphology, imaging and metabolomics predicting cardiometabolic risk and family history of type 2 diabetes in non-obese men.
Sci Rep. 2020 10(1):9973.
PubMed: 32561768 DOI: 10.1038/s41598-020-66199-z
641 Sivertsson Å, Lindström E, Oksvold P, Katona B, Hikmet F, Vuu J, Gustavsson J, Sjöstedt E, von Feilitzen K, Kampf C, Schwenk JM, Uhlén M, Lindskog C.
Enhanced Validation of Antibodies Enables the Discovery of Missing Proteins.
J Proteome Res. 2020 Epub ahead of print
PubMed: 33170010 DOI: 10.1021/acs.jproteome.0c00486
640 Dodig-Crnković T, Hong MG, Thomas CE, Häussler RS, Bendes A, Dale M, Edfors F, Forsström B, Magnusson PKE, Schuppe-Koistinen I, Odeberg J, Fagerberg L, Gummesson A, Bergström G, Uhlén M, Schwenk JM.
Facets of individual-specific health signatures determined from longitudinal plasma proteome profiling.
EBioMedicine. 2020 57():102854.
PubMed: 32629387 DOI: 10.1016/j.ebiom.2020.102854
639 Hong MG, Dodig-Crnković T, Chen X, Drobin K, Lee W, Wang Y, Edfors F, Kotol D, Thomas CE, Sjöberg R, Odeberg J, Hamsten A, Silveira A, Hall P, Nilsson P, Pawitan Y, Uhlén M, Pedersen NL, Hägg S, Magnusson PK, Schwenk JM.
Profiles of histidine-rich glycoprotein associate with age and risk of all-cause mortality.
Life Sci Alliance. 2020 3(10):.
PubMed: 32737166 DOI: 10.26508/lsa.202000817
638 Zhong W, Gummesson A, Tebani A, Karlsson MJ, Hong MG, Schwenk JM, Edfors F, Bergström G, Fagerberg L, Uhlén M.
Whole-genome sequence association analysis of blood proteins in a longitudinal wellness cohort.
Genome Med. 2020 12(1):53.
PubMed: 32576278 DOI: 10.1186/s13073-020-00755-0
637 Dezfouli M, Bergström S, Skattum L, Abolhassani H, Neiman M, Torabi-Rahvar M, Franco Jarava C, Martin-Nalda A, Ferrer Balaguer JM, Slade CA, Roos A, Fernandez Pereira LM, López-Trascasa M, Gonzalez-Granado LI, Allende-Martinez LM, Mizuno Y, Yoshida Y, Friman V, Lundgren Å, Aghamohammadi A, Rezaei N, Hernández-Gonzalez M, von Döbeln U, Truedsson L, Hara T, Nonoyama S, Schwenk JM, Nilsson P, Hammarström L.
Newborn Screening for Presymptomatic Diagnosis of Complement and Phagocyte Deficiencies.
Front Immunol. 2020 11():455.
PubMed: 32256498 DOI: 10.3389/fimmu.2020.00455
636 Drobin K, Marczyk M, Halle M, Danielsson D, Papiez A, Sangsuwan T, Bendes A, Hong MG, Qundos U, Harms-Ringdahl M, Wersäll P, Polanska J, Schwenk JM, Haghdoost S.
Molecular Profiling for Predictors of Radiosensitivity in Patients with Breast or Head-and-Neck Cancer.
Cancers (Basel). 2020 12(3):.
PubMed: 32235817 DOI: 10.3390/cancers12030753
635 Suhre K, McCarthy MI, Schwenk JM.
Genetics meets proteomics: perspectives for large population-based studies.
Nat Rev Genet. 2020 Epub ahead of print
PubMed: 32860016 DOI: 10.1038/s41576-020-0268-2
634 Lyu C, Lyu GW, Mulder J, Uhlén M, Cai XH, Hökfelt T, Sten Shi TJ.
Expression and regulation of FRMD6 in mouse DRG neurons and spinal cord after nerve injury.
Sci Rep. 2020 10(1):1880.
PubMed: 32024965 DOI: 10.1038/s41598-020-58261-7
633 Lyu C, Lyu GW, Mulder J, Martinez A, Shi TS.
G Protein-Gated Inwardly Rectifying Potassium Channel Subunit 3 is Upregulated in Rat DRGs and Spinal Cord After Peripheral Nerve Injury.
J Pain Res. 2020 13():419-429.
PubMed: 32110090 DOI: 10.2147/JPR.S233744
632 Ehrenberg AJ, Morales DO, Piergies AMH, Li SH, Tejedor JS, Mladinov M, Mulder J, Grinberg LT.
A manual multiplex immunofluorescence method for investigating neurodegenerative diseases.
J Neurosci Methods. 2020 339():108708.
PubMed: 32243897 DOI: 10.1016/j.jneumeth.2020.108708
631 Farfaras S, Roshani L, Mulder J, Mitsios N, Hallström EK, Kartus JT.
Increased levels of inflammatory markers in the subscapularis tendon and joint capsule in patients with subacromial impingement.
Knee Surg Sports Traumatol Arthrosc. 2020 Epub ahead of print
PubMed: 32356046 DOI: 10.1007/s00167-020-05992-9
630 Little PV, Arnberg F, Jussing E, Lu L, Ingemann Jensen A, Mitsios N, Mulder J, Tran TA, Holmin S.
The cellular basis of increased PET hypoxia tracer uptake in focal cerebral ischemia with comparison between [F]FMISO and [Cu]CuATSM.
J Cereb Blood Flow Metab. 2020 ():271678X20923857.
PubMed: 32423333 DOI: 10.1177/0271678X20923857
629 Morin E, Lindskog C, Johansson M, Egevad L, Sandström P, Harmenberg U, Claesson-Welsh L, Sjöberg E.
Perivascular Neuropilin-1 expression is an independent marker of improved survival in renal cell carcinoma.
J Pathol. 2020 250(4):387-396.
PubMed: 31880322 DOI: 10.1002/path.5380
628 Ström P, Kartasalo K, Olsson H, Solorzano L, Delahunt B, Berney DM, Bostwick DG, Evans AJ, Grignon DJ, Humphrey PA, Iczkowski KA, Kench JG, Kristiansen G, van der Kwast TH, Leite KRM, McKenney JK, Oxley J, Pan CC, Samaratunga H, Srigley JR, Takahashi H, Tsuzuki T, Varma M, Zhou M, Lindberg J, Lindskog C, Ruusuvuori P, Wählby C, Grönberg H, Rantalainen M, Egevad L, Eklund M.
Artificial intelligence for diagnosis and grading of prostate cancer in biopsies: a population-based, diagnostic study.
Lancet Oncol. 2020 21(2):222-232.
PubMed: 31926806 DOI: 10.1016/S1470-2045(19)30738-7
627 Guo J, Nie X, Giebler M, Mlcochova H, Wang Y, Grow EJ, DonorConnect, Kim R, Tharmalingam M, Matilionyte G, Lindskog C, Carrell DT, Mitchell RT, Goriely A, Hotaling JM, Cairns BR.
The Dynamic Transcriptional Cell Atlas of Testis Development during Human Puberty.
Cell Stem Cell. 2020 26(2):262-276.e4.
PubMed: 31928944 DOI: 10.1016/j.stem.2019.12.005
626 Niinivirta M, Georganaki M, Enblad G, Lindskog C, Dimberg A, Ullenhag GJ.
Tumor endothelial ELTD1 as a predictive marker for treatment of renal cancer patients with sunitinib.
BMC Cancer. 2020 20(1):339.
PubMed: 32321460 DOI: 10.1186/s12885-020-06770-z
625 Miyashita N, Horie M, Mikami Y, Urushiyama H, Fukuda K, Miyakawa K, Matsuzaki H, Makita K, Morishita Y, Harada H, Backman M, Lindskog C, Brunnström H, Micke P, Nagase T, Saito A.
ASCL1 promotes tumor progression through cell-autonomous signaling and immune modulation in a subset of lung adenocarcinoma.
Cancer Lett. 2020 489():121-132.
PubMed: 32534174 DOI: 10.1016/j.canlet.2020.06.002
624 Lindskog C, Backman M, Zieba A, Asplund A, Uhlén M, Landegren U, Pontén F.
Proximity Ligation Assay as a Tool for Antibody Validation in Human Tissues.
J Histochem Cytochem. 2020 68(7):515-529.
PubMed: 32602410 DOI: 10.1369/0022155420936384
623 Ali AS, Perren A, Lindskog C, Welin S, Sorbye H, Grönberg M, Janson ET.
Candidate protein biomarkers in pancreatic neuroendocrine neoplasms grade 3.
Sci Rep. 2020 10(1):10639.
PubMed: 32606315 DOI: 10.1038/s41598-020-67670-7
622 Ambroise G, Yu TT, Zhang B, Kacal M, Hao Y, Queiroz AL, Ouchida AT, Lindskog C, Norberg E, Vakifahmetoglu-Norberg H.
Systematic analysis reveals a functional role for STAMBPL1 in the epithelial-mesenchymal transition process across multiple carcinomas.
Br J Cancer. 2020 123(7):1164-1177.
PubMed: 32636467 DOI: 10.1038/s41416-020-0972-x
621 Hikmet F, Méar L, Edvinsson Å, Micke P, Uhlén M, Lindskog C.
The protein expression profile of ACE2 in human tissues.
Mol Syst Biol. 2020 16(7):e9610.
PubMed: 32715618 DOI: 10.15252/msb.20209610
620 Omenn GS, Lane L, Overall CM, Cristea IM, Corrales FJ, Lindskog C, Paik YK, Van Eyk JE, Liu S, Pennington SR, Snyder MP, Baker MS, Bandeira N, Aebersold R, Moritz RL, Deutsch EW.
Research on the Human Proteome Reaches a Major Milestone: >90% of Predicted Human Proteins Now Credibly Detected, According to the HUPO Human Proteome Project.
J Proteome Res. 2020 Epub ahead of print
PubMed: 32931287 DOI: 10.1021/acs.jproteome.0c00485
619 Danielsson F, Mahdessian D, Axelsson U, Sullivan D, Uhlén M, Andersen JS, Thul PJ, Lundberg E.
Spatial Characterization of the Human Centrosome Proteome Opens Up New Horizons for a Small but Versatile Organelle.
Proteomics. 2020 ():e1900361.
PubMed: 32558245 DOI: 10.1002/pmic.201900361
618 Bäckström A, Kugel L, Gnann C, Xu H, Aslan JE, Lundberg E, Stadler C.
A Sample Preparation Protocol for High Throughput Immunofluorescence of Suspension Cells on an Adherent Surface.
J Histochem Cytochem. 2020 68(7):473-489.
PubMed: 32564662 DOI: 10.1369/0022155420935403
617 Stenström L, Mahdessian D, Gnann C, Cesnik AJ, Ouyang W, Leonetti MD, Uhlén M, Cuylen-Haering S, Thul PJ, Lundberg E.
Mapping the nucleolar proteome reveals a spatiotemporal organization related to intrinsic protein disorder.
Mol Syst Biol. 2020 16(8):e9469.
PubMed: 32744794 DOI: 10.15252/msb.20209469
616 Adhikari S, Nice EC, Deutsch EW, Lane L, Omenn GS, Pennington SR, Paik YK, Overall CM, Corrales FJ, Cristea IM, Van Eyk JE, Uhlén M, Lindskog C, Chan DW, Bairoch A, Waddington JC, Justice JL, LaBaer J, Rodriguez H, He F, Kostrzewa M, Ping P, Gundry RL, Stewart P, Srivastava S, Srivastava S, Nogueira FCS, Domont GB, Vandenbrouck Y, Lam MPY, Wennersten S, Vizcaino JA, Wilkins M, Schwenk JM, Lundberg E, Bandeira N, Marko-Varga G, Weintraub ST, Pineau C, Kusebauch U, Moritz RL, Ahn SB, Palmblad M, Snyder MP, Aebersold R, Baker MS.
A high-stringency blueprint of the human proteome.
Nat Commun. 2020 11(1):5301.
PubMed: 33067450 DOI: 10.1038/s41467-020-19045-9
615 Ghoshal B., Lindskog C., Tucker A.
Estimating Uncertainty in Deep Learning for Reporting Confidence: An Application on Cell Type Prediction in Testes Based on Proteomics.
Advances in Intelligent Data Analysis XVIII. IDA 2020. 2020 223-234
DOI: 10.1007/978-3-030-44584-3_18
614 Tebani A, Gummesson A, Zhong W, Koistinen IS, Lakshmikanth T, Olsson LM, Boulund F, Neiman M, Stenlund H, Hellström C, Karlsson MJ, Arif M, Dodig-Crnković T, Mardinoglu A, Lee S, Zhang C, Chen Y, Olin A, Mikes J, Danielsson H, von Feilitzen K, Jansson PA, Angerås O, Huss M, Kjellqvist S, Odeberg J, Edfors F, Tremaroli V, Forsström B, Schwenk JM, Nilsson P, Moritz T, Bäckhed F, Engstrand L, Brodin P, Bergström G, Uhlen M, Fagerberg L.
Integration of molecular profiles in a longitudinal wellness profiling cohort.
Nat Commun. 2020 11(1):4487.
PubMed: 32900998 DOI: 10.1038/s41467-020-18148-7
613 Sjöstedt E, Zhong W, Fagerberg L, Karlsson M, Mitsios N, Adori C, Oksvold P, Edfors F, Limiszewska A, Hikmet F, Huang J, Du Y, Lin L, Dong Z, Yang L, Liu X, Jiang H, Xu X, Wang J, Yang H, Bolund L, Mardinoglu A, Zhang C, von Feilitzen K, Lindskog C, Pontén F, Luo Y, Hökfelt T, Uhlén M, Mulder J.
An atlas of the protein-coding genes in the human, pig, and mouse brain.
Science. 2020 367(6482)
PubMed: 32139519 DOI: 10.1126/science.aay5947
612 Jennbacken K, Wågberg F, Karlsson U, Eriksson J, Magnusson L, Chimienti M, Ricchiuto P, Bernström J, Ding M, Ross-Thriepland D, Xue Y, Peiris D, Aastrup T, Tegel H, Hober S, Sivertsson Å, Uhlén M, Strömstedt PE, Davies R, Holmberg Schiavone L.
Phenotypic Screen with the Human Secretome Identifies FGF16 as Inducing Proliferation of iPSC-Derived Cardiac Progenitor Cells.
Int J Mol Sci. 2019 20(23):.
PubMed: 31801200 DOI: 10.3390/ijms20236037
611 Robinson JL, Feizi A, Uhlén M, Nielsen J.
A Systematic Investigation of the Malignant Functions and Diagnostic Potential of the Cancer Secretome.
Cell Rep. 2019 26(10):2622-2635.e5.
PubMed: 30840886 DOI: 10.1016/j.celrep.2019.02.025
610 Hober A, Edfors F, Ryaboshapkina M, Malmqvist J, Rosengren L, Percy AJ, Lind L, Forsström B, Uhlén M, Oscarsson J, Miliotis T.
Absolute Quantification of Apolipoproteins Following Treatment with Omega-3 Carboxylic Acids and Fenofibrate Using a High Precision Stable Isotope-labeled Recombinant Protein Fragments Based SRM Assay.
Mol Cell Proteomics. 2019 18(12):2433-2446.
PubMed: 31591263 DOI: 10.1074/mcp.RA119.001765
609 Dusart P, Hallström BM, Renné T, Odeberg J, Uhlén M, Butler LM.
A Systems-Based Map of Human Brain Cell-Type Enriched Genes and Malignancy-Associated Endothelial Changes.
Cell Rep. 2019 29(6):1690-1706.e4.
PubMed: 31693905 DOI: 10.1016/j.celrep.2019.09.088
608 Ruiz-Romero C, Lam MPY, Nilsson P, Önnerfjord P, Utz PJ, Van Eyk JE, Venkatraman V, Fert-Bober J, Watt FE, Blanco FJ.
Mining the Proteome Associated with Rheumatic and Autoimmune Diseases.
J Proteome Res. 2019 18(12):4231-4239.
PubMed: 31599600 DOI: 10.1021/acs.jproteome.9b00360
607 Sahebekhtiari N, Saraswat M, Joenväärä S, Jokinen R, Lovric A, Kaye S, Mardinoglu A, Rissanen A, Kaprio J, Renkonen R, Pietiläinen KH.
Plasma Proteomics Analysis Reveals Dysregulation of Complement Proteins and Inflammation in Acquired Obesity-A Study on Rare BMI-Discordant Monozygotic Twin Pairs.
Proteomics Clin Appl. 2019 13(4):e1800173.
PubMed: 30688043 DOI: 10.1002/prca.201800173
606 Zhang C, Aldrees M, Arif M, Li X, Mardinoglu A, Aziz MA.
Elucidating the Reprograming of Colorectal Cancer Metabolism Using Genome-Scale Metabolic Modeling.
Front Oncol. 2019 9():681.
PubMed: 31417867 DOI: 10.3389/fonc.2019.00681
605 Lundgren S, Fagerström-Vahman H, Zhang C, Ben-Dror L, Mardinoglu A, Uhlen M, Nodin B, Jirström K.
Discovery of KIRREL as a biomarker for prognostic stratification of patients with thin melanoma.
Biomark Res. 2019 7():1.
PubMed: 30675360 DOI: 10.1186/s40364-018-0153-8
604 Benfeitas R, Bidkhori G, Mukhopadhyay B, Klevstig M, Arif M, Zhang C, Lee S, Cinar R, Nielsen J, Uhlen M, Boren J, Kunos G, Mardinoglu A.
Characterization of heterogeneous redox responses in hepatocellular carcinoma patients using network analysis.
EBioMedicine. 2019 40():471-487.
PubMed: 30606699 DOI: 10.1016/j.ebiom.2018.12.057
603 Liu Z, Zhang C, Lee S, Kim W, Klevstig M, Harzandi AM, Sikanic N, Arif M, Ståhlman M, Nielsen J, Uhlen M, Boren J, Mardinoglu A.
Pyruvate kinase L/R is a regulator of lipid metabolism and mitochondrial function.
Metab Eng. 2019 52():263-272.
PubMed: 30615941 DOI: 10.1016/j.ymben.2019.01.001
602 Svensson MC, Borg D, Zhang C, Hedner C, Nodin B, Uhlén M, Mardinoglu A, Leandersson K, Jirström K.
Expression of PD-L1 and PD-1 in Chemoradiotherapy-Naïve Esophageal and Gastric Adenocarcinoma: Relationship With Mismatch Repair Status and Survival.
Front Oncol. 2019 9():136.
PubMed: 30931254 DOI: 10.3389/fonc.2019.00136
601 Turanli B, Zhang C, Kim W, Benfeitas R, Uhlen M, Arga KY, Mardinoglu A.
Discovery of therapeutic agents for prostate cancer using genome-scale metabolic modeling and drug repositioning.
EBioMedicine. 2019 42():386-396.
PubMed: 30905848 DOI: 10.1016/j.ebiom.2019.03.009
600 Harms MJ, Li Q, Lee S, Zhang C, Kull B, Hallen S, Thorell A, Alexandersson I, Hagberg CE, Peng XR, Mardinoglu A, Spalding KL, Boucher J.
Mature Human White Adipocytes Cultured under Membranes Maintain Identity, Function, and Can Transdifferentiate into Brown-like Adipocytes.
Cell Rep. 2019 27(1):213-225.e5.
PubMed: 30943403 DOI: 10.1016/j.celrep.2019.03.026
599 Turanli B, Karagoz K, Bidkhori G, Sinha R, Gatza ML, Uhlen M, Mardinoglu A, Arga KY.
Multi-Omic Data Interpretation to Repurpose Subtype Specific Drug Candidates for Breast Cancer.
Front Genet. 2019 10():420.
PubMed: 31134131 DOI: 10.3389/fgene.2019.00420
598 Mardinoglu A, Ural D, Zeybel M, Yuksel HH, Uhlén M, Borén J.
The Potential Use of Metabolic Cofactors in Treatment of NAFLD.
Nutrients. 2019 11(7):.
PubMed: 31336926 DOI: 10.3390/nu11071578
597 Altay O, Nielsen J, Uhlen M, Boren J, Mardinoglu A.
Systems biology perspective for studying the gut microbiota in human physiology and liver diseases.
EBioMedicine. 2019 49():364-373.
PubMed: 31636011 DOI: 10.1016/j.ebiom.2019.09.057
596 Klevstig M, Arif M, Mannila M, Svedlund S, Mardani I, Ståhlman M, Andersson L, Lindbom M, Miljanovic A, Franco-Cereceda A, Eriksson P, Jeppsson A, Gan LM, Levin M, Mardinoglu A, Ehrenborg E, Borén J.
Cardiac expression of the microsomal triglyceride transport protein protects the heart function during ischemia.
J Mol Cell Cardiol. 2019 137():1-8.
PubMed: 31533023 DOI: 10.1016/j.yjmcc.2019.09.003
595 Dawed AY, Zhou K, van Leeuwen N, Mahajan A, Robertson N, Koivula R, Elders PJM, Rauh SP, Jones AG, Holl RW, Stingl JC, Franks PW, McCarthy MI, 't Hart LM, Pearson ER, IMI DIRECT Consortium.
Variation in the Plasma Membrane Monoamine Transporter (PMAT) (Encoded by ) and Organic Cation Transporter 1 (OCT1) (Encoded by ) and Gastrointestinal Intolerance to Metformin in Type 2 Diabetes: An IMI DIRECT Study.
Diabetes Care. 2019 42(6):1027-1033.
PubMed: 30885951 DOI: 10.2337/dc18-2182
594 Lorenzen E, Dodig-Crnković T, Kotliar IB, Pin E, Ceraudo E, Vaughan RD, Uhlèn M, Huber T, Schwenk JM, Sakmar TP.
Multiplexed analysis of the secretin-like GPCR-RAMP interactome.
Sci Adv. 2019 5(9):eaaw2778.
PubMed: 31555726 DOI: 10.1126/sciadv.aaw2778
593 Ignjatovic V, Geyer PE, Palaniappan KK, Chaaban JE, Omenn GS, Baker MS, Deutsch EW, Schwenk JM.
Mass Spectrometry-Based Plasma Proteomics: Considerations from Sample Collection to Achieving Translational Data.
J Proteome Res. 2019 18(12):4085-4097.
PubMed: 31573204 DOI: 10.1021/acs.jproteome.9b00503
592 Svedberg MM, Varnäs K, Varrone A, Mitsios N, Mulder J, Gulyás B, Beaumont V, Munoz-Sanjuan I, Zaleska MM, Schmidt CJ, Halldin C, Mrzljak L.
In vitro phosphodiesterase 10A (PDE10A) binding in whole hemisphere human brain using the PET radioligand [F]MNI-659.
Brain Res. 2019 1711():140-145.
PubMed: 30664847 DOI: 10.1016/j.brainres.2019.01.021
591 Zhao Z, Kurimchak A, Nikonova AS, Feiser F, Wasserman JS, Fowle H, Varughese T, Connors M, Johnson K, Makhov P, Lindskog C, Kolenko VM, Golemis EA, Duncan JS, Graña X.
PPP2R2A prostate cancer haploinsufficiency is associated with worse prognosis and a high vulnerability to B55α/PP2A reconstitution that triggers centrosome destabilization.
Oncogenesis. 2019 8(12):72.
PubMed: 31822657 DOI: 10.1038/s41389-019-0180-9
590 Ouyang W, Mueller F, Hjelmare M, Lundberg E, Zimmer C.
ImJoy: an open-source computational platform for the deep learning era.
Nat Methods. 2019 16(12):1199-1200.
PubMed: 31780825 DOI: 10.1038/s41592-019-0627-0
589 Ouyang W, Winsnes CF, Hjelmare M, Cesnik AJ, Åkesson L, Xu H, Sullivan DP, Dai S, Lan J, Jinmo P, Galib SM, Henkel C, Hwang K, Poplavskiy D, Tunguz B, Wolfinger RD, Gu Y, Li C, Xie J, Buslov D, Fironov S, Kiselev A, Panchenko D, Cao X, Wei R, Wu Y, Zhu X, Tseng KL, Gao Z, Ju C, Yi X, Zheng H, Kappel C, Lundberg E.
Analysis of the Human Protein Atlas Image Classification competition.
Nat Methods. 2019 16(12):1254-1261.
PubMed: 31780840 DOI: 10.1038/s41592-019-0658-6
588 Uhlen M, Karlsson MJ, Zhong W, Tebani A, Pou C, Mikes J, Lakshmikanth T, Forsström B, Edfors F, Odeberg J, Mardinoglu A, Zhang C, von Feilitzen K, Mulder J, Sjöstedt E, Hober A, Oksvold P, Zwahlen M, Ponten F, Lindskog C, Sivertsson Å, Fagerberg L, Brodin P.
A genome-wide transcriptomic analysis of protein-coding genes in human blood cells.
Science. 2019 366(6472)
PubMed: 31857451 DOI: 10.1126/science.aax9198
587 Uhlén M, Karlsson MJ, Hober A, Svensson AS, Scheffel J, Kotol D, Zhong W, Tebani A, Strandberg L, Edfors F, Sjöstedt E, Mulder J, Mardinoglu A, Berling A, Ekblad S, Dannemeyer M, Kanje S, Rockberg J, Lundqvist M, Malm M, Volk AL, Nilsson P, Månberg A, Dodig-Crnkovic T, Pin E, Zwahlen M, Oksvold P, von Feilitzen K, Häussler RS, Hong MG, Lindskog C, Ponten F, Katona B, Vuu J, Lindström E, Nielsen J, Robinson J, Ayoglu B, Mahdessian D, Sullivan D, Thul P, Danielsson F, Stadler C, Lundberg E, Bergström G, Gummesson A, Voldborg BG, Tegel H, Hober S, Forsström B, Schwenk JM, Fagerberg L, Sivertsson Å.
The human secretome.
Sci Signal. 2019 12(609)
PubMed: 31772123 DOI: 10.1126/scisignal.aaz0274 Free access: Abstract, Full text, Reprint
586 Koivula RW, Forgie IM, Kurbasic A, Viñuela A, Heggie A, Giordano GN, Hansen TH, Hudson M, Koopman ADM, Rutters F, Siloaho M, Allin KH, Brage S, Brorsson CA, Dawed AY, De Masi F, Groves CJ, Kokkola T, Mahajan A, Perry MH, Rauh SP, Ridderstråle M, Teare HJA, Thomas EL, Tura A, Vestergaard H, White T, Adamski J, Bell JD, Beulens JW, Brunak S, Dermitzakis ET, Froguel P, Frost G, Gupta R, Hansen T, Hattersley A, Jablonka B, Kaye J, Laakso M, McDonald TJ, Pedersen O, Schwenk JM, Pavo I, Mari A, McCarthy MI, Ruetten H, Walker M, Pearson E, Franks PW, IMI DIRECT Consortium.
Discovery of biomarkers for glycaemic deterioration before and after the onset of type 2 diabetes: descriptive characteristics of the epidemiological studies within the IMI DIRECT Consortium.
Diabetologia. 2019 62(9):1601-1615.
PubMed: 31203377 DOI: 10.1007/s00125-019-4906-1
585 Elfving H, Mattsson JSM, Lindskog C, Backman M, Menzel U, Micke P.
Programmed Cell Death Ligand 1 Immunohistochemistry: A Concordance Study Between Surgical Specimen, Biopsy, and Tissue Microarray.
Clin Lung Cancer. 2019 20(4):258-262.e1.
PubMed: 30926355 DOI: 10.1016/j.cllc.2019.02.012
584 Pineau C, Hikmet F, Zhang C, Oksvold P, Chen S, Fagerberg L, Uhlén M, Lindskog C.
Cell Type-Specific Expression of Testis Elevated Genes Based on Transcriptomics and Antibody-Based Proteomics.
J Proteome Res. 2019 18(12):4215-4230.
PubMed: 31429579 DOI: 10.1021/acs.jproteome.9b00351
583 Pin E, Sjöberg R, Andersson E, Hellström C, Olofsson J, Jernbom Falk A, Bergström S, Remnestål J, Just D, Nilsson P, Månberg A.
Array-Based Profiling of Proteins and Autoantibody Repertoires in CSF.
Methods Mol Biol. 2019 2044():303-318.
PubMed: 31432421 DOI: 10.1007/978-1-4939-9706-0_19
582 Tengvall K, Huang J, Hellström C, Kammer P, Biström M, Ayoglu B, Lima Bomfim I, Stridh P, Butt J, Brenner N, Michel A, Lundberg K, Padyukov L, Lundberg IE, Svenungsson E, Ernberg I, Olafsson S, Dilthey AT, Hillert J, Alfredsson L, Sundström P, Nilsson P, Waterboer T, Olsson T, Kockum I.
Molecular mimicry between Anoctamin 2 and Epstein-Barr virus nuclear antigen 1 associates with multiple sclerosis risk.
Proc Natl Acad Sci U S A. 2019 116(34):16955-16960.
PubMed: 31375628 DOI: 10.1073/pnas.1902623116
581 Idborg H, Zandian A, Ossipova E, Wigren E, Preger C, Mobarrez F, Checa A, Sohrabian A, Pucholt P, Sandling JK, Fernandes-Cerqueira C, Rönnelid J, Oke V, Grosso G, Kvarnström M, Larsson A, Wheelock CE, Syvänen AC, Rönnblom L, Kultima K, Persson H, Gräslund S, Gunnarsson I, Nilsson P, Svenungsson E, Jakobsson PJ.
Circulating Levels of Interferon Regulatory Factor-5 Associates With Subgroups of Systemic Lupus Erythematosus Patients.
Front Immunol. 2019 10():1029.
PubMed: 31156624 DOI: 10.3389/fimmu.2019.01029
580 Bedri SK, Nilsson OB, Fink K, Månberg A, Hamsten C, Ayoglu B, Manouchehrinia A, Nilsson P, Olsson T, Hillert J, Grönlund H, Glaser A.
Plasma protein profiling reveals candidate biomarkers for multiple sclerosis treatment.
PLoS One. 2019 14(5):e0217208.
PubMed: 31141529 DOI: 10.1371/journal.pone.0217208
579 Neiman M, Hellström C, Just D, Mattsson C, Fagerberg L, Schuppe-Koistinen I, Gummesson A, Bergström G, Kallioniemi O, Achour A, Sallinen R, Uhlén M, Nilsson P.
Individual and stable autoantibody repertoires in healthy individuals.
Autoimmunity. 2019 52(1):1-11.
PubMed: 30835561 DOI: 10.1080/08916934.2019.1581774
578 Idborg H, Zandian A, Sandberg AS, Nilsson B, Elvin K, Truedsson L, Sohrabian A, Rönnelid J, Mo J, Grosso G, Kvarnström M, Gunnarsson I, Lehtiö J, Nilsson P, Svenungsson E, Jakobsson PJ.
Two subgroups in systemic lupus erythematosus with features of antiphospholipid or Sjögren's syndrome differ in molecular signatures and treatment perspectives.
Arthritis Res Ther. 2019 21(1):62.
PubMed: 30777133 DOI: 10.1186/s13075-019-1836-8
577 Mikus M, Johansson C, Acevedo N, Nilsson P, Scheynius A.
The antimicrobial protein S100A12 identified as a potential autoantigen in a subgroup of atopic dermatitis patients.
Clin Transl Allergy. 2019 9():6.
PubMed: 30728947 DOI: 10.1186/s13601-019-0240-4
576 Khoonsari PE, Shevchenko G, Herman S, Remnestål J, Giedraitis V, Brundin R, Degerman Gunnarsson M, Kilander L, Zetterberg H, Nilsson P, Lannfelt L, Ingelsson M, Kultima K.
Improved Differential Diagnosis of Alzheimer's Disease by Integrating ELISA and Mass Spectrometry-Based Cerebrospinal Fluid Biomarkers.
J Alzheimers Dis. 2019 67(2):639-651.
PubMed: 30614806 DOI: 10.3233/JAD-180855
575 Ge C, Xu B, Liang B, Lönnblom E, Lundström SL, Zubarev RA, Ayoglu B, Nilsson P, Skogh T, Kastbom A, Malmström V, Klareskog L, Toes REM, Rispens T, Dobritzsch D, Holmdahl R.
Structural Basis of Cross-Reactivity of Anti-Citrullinated Protein Antibodies.
Arthritis Rheumatol. 2019 71(2):210-221.
PubMed: 30152126 DOI: 10.1002/art.40698
574 Steen J, Forsström B, Sahlström P, Odowd V, Israelsson L, Krishnamurthy A, Badreh S, Mathsson Alm L, Compson J, Ramsköld D, Ndlovu W, Rapecki S, Hansson M, Titcombe PJ, Bang H, Mueller DL, Catrina AI, Grönwall C, Skriner K, Nilsson P, Lightwood D, Klareskog L, Malmström V.
Recognition of Amino Acid Motifs, Rather Than Specific Proteins, by Human Plasma Cell-Derived Monoclonal Antibodies to Posttranslationally Modified Proteins in Rheumatoid Arthritis.
Arthritis Rheumatol. 2019 71(2):196-209.
PubMed: 30152202 DOI: 10.1002/art.40699
573 Månberg A, Bradley F, Qundos U, Guthrie BL, Birse K, Noël-Romas L, Lindskog C, Bosire R, Kiarie J, Farquhar C, Burgener AD, Nilsson P, Broliden K.
A High-throughput Bead-based Affinity Assay Enables Analysis of Genital Protein Signatures in Women At Risk of HIV Infection.
Mol Cell Proteomics. 2019 18(3):461-476.
PubMed: 30504243 DOI: 10.1074/mcp.RA118.000757
572 Lundberg E, Borner GHH.
Spatial proteomics: a powerful discovery tool for cell biology.
Nat Rev Mol Cell Biol. 2019 20(5):285-302.
PubMed: 30659282 DOI: 10.1038/s41580-018-0094-y
571 Edlund K, Madjar K, Mattsson JSM, Djureinovic D, Lindskog C, Brunnström H, Koyi H, Brandén E, Jirström K, Pontén F, Rahnenführer J, Micke P, Hengstler JG.
Prognostic Impact of Tumor Cell Programmed Death Ligand 1 Expression and Immune Cell Infiltration in NSCLC.
J Thorac Oncol. 2019 14(4):628-640.
PubMed: 30639618 DOI: 10.1016/j.jtho.2018.12.022
570 Cadenas C, Vosbeck S, Edlund K, Grgas K, Madjar K, Hellwig B, Adawy A, Glotzbach A, Stewart JD, Lesjak MS, Franckenstein D, Claus M, Hayen H, Schriewer A, Gianmoena K, Thaler S, Schmidt M, Micke P, Pontén F, Mardinoglu A, Zhang C, Käfferlein HU, Watzl C, Frank S, Rahnenführer J, Marchan R, Hengstler JG.
LIPG-promoted lipid storage mediates adaptation to oxidative stress in breast cancer.
Int J Cancer. 2019 145(4):901-915.
PubMed: 30653260 DOI: 10.1002/ijc.32138
569 Wang D, Eraslan B, Wieland T, Hallström B, Hopf T, Zolg DP, Zecha J, Asplund A, Li LH, Meng C, Frejno M, Schmidt T, Schnatbaum K, Wilhelm M, Ponten F, Uhlen M, Gagneur J, Hahne H, Kuster B.
A deep proteome and transcriptome abundance atlas of 29 healthy human tissues.
Mol Syst Biol. 2019 15(2):e8503.
PubMed: 30777892 DOI: 10.15252/msb.20188503
568 Eraslan B, Wang D, Gusic M, Prokisch H, Hallström BM, Uhlén M, Asplund A, Pontén F, Wieland T, Hopf T, Hahne H, Kuster B, Gagneur J.
Quantification and discovery of sequence determinants of protein-per-mRNA amount in 29 human tissues.
Mol Syst Biol. 2019 15(2):e8513.
PubMed: 30777893 DOI: 10.15252/msb.20188513
567 Aasebø KØ, Dragomir A, Sundström M, Mezheyeuski A, Edqvist PH, Eide GE, Ponten F, Pfeiffer P, Glimelius B, Sorbye H.
Consequences of a high incidence of microsatellite instability and BRAF-mutated tumors: A population-based cohort of metastatic colorectal cancer patients.
Cancer Med. 2019 8(7):3623-3635.
PubMed: 31070306 DOI: 10.1002/cam4.2205
566 Mezheyeuski A, Hrynchyk I, Herrera M, Karlberg M, Osterman E, Ragnhammar P, Edler D, Portyanko A, Ponten F, Sjöblom T, Glimelius B, Östman A.
Stroma-normalised vessel density predicts benefit from adjuvant fluorouracil-based chemotherapy in patients with stage II/III colon cancer.
Br J Cancer. 2019 121(4):303-311.
PubMed: 31289351 DOI: 10.1038/s41416-019-0519-1
565 Niinivirta M, Enblad G, Lindskog C, Pontén F, Dragomir A, Ullenhag GJ.
Tumoral Pyruvate Kinase L/R as a Predictive Marker for the Treatment of Renal Cancer Patients with Sunitinib and Sorafenib.
J Cancer. 2019 10(14):3224-3231.
PubMed: 31289593 DOI: 10.7150/jca.30130
564 Omenn GS, Lane L, Overall CM, Corrales FJ, Schwenk JM, Paik YK, Van Eyk JE, Liu S, Pennington S, Snyder MP, Baker MS, Deutsch EW.
Progress on Identifying and Characterizing the Human Proteome: 2019 Metrics from the HUPO Human Proteome Project.
J Proteome Res. 2019 18(12):4098-4107.
PubMed: 31430157 DOI: 10.1021/acs.jproteome.9b00434
563 Häussler RS, Bendes A, Iglesias M, Sanchez-Rivera L, Dodig-Crnković T, Byström S, Fredolini C, Birgersson E, Dale M, Edfors F, Fagerberg L, Rockberg J, Tegel H, Uhlén M, Qundos U, Schwenk JM.
Systematic Development of Sandwich Immunoassays for the Plasma Secretome.
Proteomics. 2019 19(15):e1900008.
PubMed: 31278833 DOI: 10.1002/pmic.201900008
562 Fredolini C, Byström S, Sanchez-Rivera L, Ioannou M, Tamburro D, Pontén F, Branca RM, Nilsson P, Lehtiö J, Schwenk JM.
Systematic assessment of antibody selectivity in plasma based on a resource of enrichment profiles.
Sci Rep. 2019 9(1):8324.
PubMed: 31171813 DOI: 10.1038/s41598-019-43552-5
561 Edfors F, Forsström B, Vunk H, Kotol D, Fredolini C, Maddalo G, Svensson AS, Boström T, Tegel H, Nilsson P, Schwenk JM, Uhlen M.
Screening a Resource of Recombinant Protein Fragments for Targeted Proteomics.
J Proteome Res. 2019 18(7):2706-2718.
PubMed: 31094526 DOI: 10.1021/acs.jproteome.8b00924
560 Pernemalm M, Sandberg A, Zhu Y, Boekel J, Tamburro D, Schwenk JM, Björk A, Wahren-Herlenius M, Åmark H, Östenson CG, Westgren M, Lehtiö J.
In-depth human plasma proteome analysis captures tissue proteins and transfer of protein variants across the placenta.
Elife. 2019 8():.
PubMed: 30958262 DOI: 10.7554/eLife.41608
559 Andersson A, Remnestål J, Nellgård B, Vunk H, Kotol D, Edfors F, Uhlén M, Schwenk JM, Ilag LL, Zetterberg H, Blennow K, Månberg A, Nilsson P, Fredolini C.
Development of parallel reaction monitoring assays for cerebrospinal fluid proteins associated with Alzheimer's disease.
Clin Chim Acta. 2019 494():79-93.
PubMed: 30858094 DOI: 10.1016/j.cca.2019.03.243
558 Drobin K, Assadi G, Hong MG, Andersson E, Fredolini C, Forsström B, Reznichenko A, Akhter T, Ek WE, Bonfiglio F, Hansen MB, Sandberg K, Greco D, Repsilber D, Schwenk JM, D'Amato M, Halfvarson J.
Targeted Analysis of Serum Proteins Encoded at Known Inflammatory Bowel Disease Risk Loci.
Inflamm Bowel Dis. 2019 25(2):306-316.
PubMed: 30358838 DOI: 10.1093/ibd/izy326
557 Fasterius E, Al-Khalili Szigyarto C.
Analysis of public RNA-sequencing data reveals biological consequences of genetic heterogeneity in cell line populations.
Sci Rep. 2018 8(1):11226.
PubMed: 30046134 DOI: 10.1038/s41598-018-29506-3
556 Chen Z, Dodig-Crnković T, Schwenk JM, Tao SC.
Current applications of antibody microarrays.
Clin Proteomics. 2018 15():7.
PubMed: 29507545 DOI: 10.1186/s12014-018-9184-2
555 The M, Edfors F, Perez-Riverol Y, Payne SH, Hoopmann MR, Palmblad M, Forsström B, Käll L.
A Protein Standard That Emulates Homology for the Characterization of Protein Inference Algorithms.
J Proteome Res. 2018 17(5):1879-1886.
PubMed: 29631402 DOI: 10.1021/acs.jproteome.7b00899
554 Byström S, Eklund M, Hong MG, Fredolini C, Eriksson M, Czene K, Hall P, Schwenk JM, Gabrielson M.
Affinity proteomic profiling of plasma for proteins associated to area-based mammographic breast density.
Breast Cancer Res. 2018 20(1):14.
PubMed: 29444691 DOI: 10.1186/s13058-018-0940-z
553 Zamani L, Lundqvist M, Zhang Y, Aberg M, Edfors F, Bidkhori G, Lindahl A, Mie A, Mardinoglu A, Field R, Turner R, Rockberg J, Chotteau V.
High Cell Density Perfusion Culture has a Maintained Exoproteome and Metabolome.
Biotechnol J. 2018 13(10):e1800036.
PubMed: 29957873 DOI: 10.1002/biot.201800036
552 Mardinoglu A, Gogg S, Lotta LA, Stančáková A, Nerstedt A, Boren J, Blüher M, Ferrannini E, Langenberg C, Wareham NJ, Laakso M, Smith U.
Elevated Plasma Levels of 3-Hydroxyisobutyric Acid Are Associated With Incident Type 2 Diabetes.
EBioMedicine. 2018 27():151-155.
PubMed: 29246479 DOI: 10.1016/j.ebiom.2017.12.008
551 Liu Z, Mardinoglu A, Que S.
Letter: dose-response analysis revealed closer relationship between obesity and perioperative outcomes in patients after liver transplantation.
Aliment Pharmacol Ther. 2018 47(2):310-312.
PubMed: 29265455 DOI: 10.1111/apt.14425
550 Piening BD, Zhou W, Contrepois K, Röst H, Gu Urban GJ, Mishra T, Hanson BM, Bautista EJ, Leopold S, Yeh CY, Spakowicz D, Banerjee I, Chen C, Kukurba K, Perelman D, Craig C, Colbert E, Salins D, Rego S, Lee S, Zhang C, Wheeler J, Sailani MR, Liang L, Abbott C, Gerstein M, Mardinoglu A, Smith U, Rubin DL, Pitteri S, Sodergren E, McLaughlin TL, Weinstock GM, Snyder MP.
Integrative Personal Omics Profiles during Periods of Weight Gain and Loss.
Cell Syst. 2018 6(2):157-170.e8.
PubMed: 29361466 DOI: 10.1016/j.cels.2017.12.013
549 Liu Z, Liang S, Que S, Zhou L, Zheng S, Mardinoglu A.
Meta-Analysis of Adiponectin as a Biomarker for the Detection of Metabolic Syndrome.
Front Physiol. 2018 9():1238.
PubMed: 30333754 DOI: 10.3389/fphys.2018.01238
548 Zhang C, Bidkhori G, Benfeitas R, Lee S, Arif M, Uhlén M, Mardinoglu A.
ESS: A Tool for Genome-Scale Quantification of Essentiality Score for Reaction/Genes in Constraint-Based Modeling.
Front Physiol. 2018 9():1355.
PubMed: 30323767 DOI: 10.3389/fphys.2018.01355
547 Zhang X, Mardinoglu A, Joosten LAB, Kuivenhoven JA, Li Y, Netea MG, Groen AK.
Identification of Discriminating Metabolic Pathways and Metabolites in Human PBMCs Stimulated by Various Pathogenic Agents.
Front Physiol. 2018 9():139.
PubMed: 29535640 DOI: 10.3389/fphys.2018.00139
546 Turanli B, Karagoz K, Gulfidan G, Sinha R, Mardinoglu A, Arga KY.
A Network-Based Cancer Drug Discovery: From Integrated Multi-Omics Approaches to Precision Medicine.
Curr Pharm Des. 2018 24(32):3778-3790.
PubMed: 30398107 DOI: 10.2174/1381612824666181106095959
545 Håversen L, Sundelin JP, Mardinoglu A, Rutberg M, Ståhlman M, Wilhelmsson U, Hultén LM, Pekny M, Fogelstrand P, Bentzon JF, Levin M, Borén J.
Vimentin deficiency in macrophages induces increased oxidative stress and vascular inflammation but attenuates atherosclerosis in mice.
Sci Rep. 2018 8(1):16973.
PubMed: 30451917 DOI: 10.1038/s41598-018-34659-2
544 Bidkhori G, Benfeitas R, Klevstig M, Zhang C, Nielsen J, Uhlen M, Boren J, Mardinoglu A.
Metabolic network-based stratification of hepatocellular carcinoma reveals three distinct tumor subtypes.
Proc Natl Acad Sci U S A. 2018 115(50):E11874-E11883.
PubMed: 30482855 DOI: 10.1073/pnas.1807305115
543 Nicholson AM, Olpe C, Hoyle A, Thorsen AS, Rus T, Colombé M, Brunton-Sim R, Kemp R, Marks K, Quirke P, Malhotra S, Ten Hoopen R, Ibrahim A, Lindskog C, Myers MB, Parsons B, Tavaré S, Wilkinson M, Morrissey E, Winton DJ.
Fixation and Spread of Somatic Mutations in Adult Human Colonic Epithelium.
Cell Stem Cell. 2018 22(6):909-918.e8.
PubMed: 29779891 DOI: 10.1016/j.stem.2018.04.020
542 Morin E, Sjöberg E, Tjomsland V, Testini C, Lindskog C, Franklin O, Sund M, Öhlund D, Kiflemariam S, Sjöblom T, Claesson-Welsh L.
VEGF receptor-2/neuropilin 1 trans-complex formation between endothelial and tumor cells is an independent predictor of pancreatic cancer survival.
J Pathol. 2018 246(3):311-322.
PubMed: 30027561 DOI: 10.1002/path.5141
541 Miyashita N, Horie M, Suzuki HI, Yoshihara M, Djureinovic D, Persson J, Brunnström H, Lindskog C, Elfving H, Micke P, Saito A, Nagase T.
An Integrative Analysis of Transcriptome and Epigenome Features of ASCL1-Positive Lung Adenocarcinomas.
J Thorac Oncol. 2018 13(11):1676-1691.
PubMed: 30121393 DOI: 10.1016/j.jtho.2018.07.096
540 Strakova K, Kowalski-Jahn M, Gybel T, Valnohova J, Dhople VM, Harnos J, Bernatik O, Ganji RS, Zdrahal Z, Mulder J, Lindskog C, Bryja V, Schulte G.
Dishevelled enables casein kinase 1-mediated phosphorylation of Frizzled 6 required for cell membrane localization.
J Biol Chem. 2018 293(48):18477-18493.
PubMed: 30309985 DOI: 10.1074/jbc.RA118.004656
539 Guo J, Grow EJ, Mlcochova H, Maher GJ, Lindskog C, Nie X, Guo Y, Takei Y, Yun J, Cai L, Kim R, Carrell DT, Goriely A, Hotaling JM, Cairns BR.
The adult human testis transcriptional cell atlas.
Cell Res. 2018 28(12):1141-1157.
PubMed: 30315278 DOI: 10.1038/s41422-018-0099-2
538 Reuterswärd P, Bergström S, Orikiiriza J, Lindquist E, Bergström S, Andersson Svahn H, Ayoglu B, Uhlén M, Wahlgren M, Normark J, Ribacke U, Nilsson P.
Levels of human proteins in plasma associated with acute paediatric malaria.
Malar J. 2018 17(1):426.
PubMed: 30442134 DOI: 10.1186/s12936-018-2576-y
537 Quintana MDP, Ch'ng JH, Zandian A, Imam M, Hultenby K, Theisen M, Nilsson P, Qundos U, Moll K, Chan S, Wahlgren M.
SURGE complex of Plasmodium falciparum in the rhoptry-neck (SURFIN4.2-RON4-GLURP) contributes to merozoite invasion.
PLoS One. 2018 13(8):e0201669.
PubMed: 30092030 DOI: 10.1371/journal.pone.0201669
536 Frostegård J, Hellström C, Nilsson P, Frostegård AG, Ajeganova S.
Autoantibody profiling reveals four protein candidate autoantigens associated with systemic lupus erythematosus.
Lupus. 2018 27(10):1670-1678.
PubMed: 30041579 DOI: 10.1177/0961203318788153
535 Sjöberg R, Andersson E, Hellström C, Mattsson C, Schwenk JM, Nilsson P, Ayoglu B.
High-Density Antigen Microarrays for the Assessment of Antibody Selectivity and Off-Target Binding.
Methods Mol Biol. 2018 1785():231-238.
PubMed: 29714022 DOI: 10.1007/978-1-4939-7841-0_15
534 Ayoglu B, Nilsson P, Schwenk JM.
Multiplexed Antigen Bead Arrays for the Assessment of Antibody Selectivity and Epitope Mapping.
Methods Mol Biol. 2018 1785():239-248.
PubMed: 29714023 DOI: 10.1007/978-1-4939-7841-0_16
533 Bremer HD, Landegren N, Sjöberg R, Hallgren Å, Renneker S, Lattwein E, Leonard D, Eloranta ML, Rönnblom L, Nordmark G, Nilsson P, Andersson G, Lilliehöök I, Lindblad-Toh K, Kämpe O, Hansson-Hamlin H.
ILF2 and ILF3 are autoantigens in canine systemic autoimmune disease.
Sci Rep. 2018 8(1):4852.
PubMed: 29556082 DOI: 10.1038/s41598-018-23034-w
532 Garranzo-Asensio M, San Segundo-Acosta P, Martínez-Useros J, Montero-Calle A, Fernández-Aceñero MJ, Häggmark-Månberg A, Pelaez-Garcia A, Villalba M, Rabano A, Nilsson P, Barderas R.
Identification of prefrontal cortex protein alterations in Alzheimer's disease.
Oncotarget. 2018 9(13):10847-10867.
PubMed: 29541381 DOI: 10.18632/oncotarget.24303
531 Quintana MDP, Ch'ng JH, Moll K, Zandian A, Nilsson P, Idris ZM, Saiwaew S, Qundos U, Wahlgren M.
Antibodies in children with malaria to PfEMP1, RIFIN and SURFIN expressed at the Plasmodium falciparum parasitized red blood cell surface.
Sci Rep. 2018 8(1):3262.
PubMed: 29459776 DOI: 10.1038/s41598-018-21026-4
530 Weidner LD, Kannan P, Mitsios N, Kang SJ, Hall MD, Theodore WH, Innis RB, Mulder J.
The expression of inflammatory markers and their potential influence on efflux transporters in drug-resistant mesial temporal lobe epilepsy tissue.
Epilepsia. 2018 59(8):1507-1517.
PubMed: 30030837 DOI: 10.1111/epi.14505
529 Dos Remedios CG, Lal SP, Li A, McNamara J, Keogh A, Macdonald PS, Cooke R, Ehler E, Knöll R, Marston SB, Stelzer J, Granzier H, Bezzina C, van Dijk S, De Man F, Stienen GJM, Odeberg J, Pontén F, Linke WA, van der Velden J.
Correction to: The Sydney Heart Bank: improving translational research while eliminating or reducing the use of animal models of human heart disease.
Biophys Rev. 2018 10(3):941.
PubMed: 29388160 DOI: 10.1007/s12551-018-0397-4
528 Casar-Borota O, Bollerslev J, Pontén F.
Immunohistochemistry for transcription factor T-Pit as a tool in diagnostics of corticotroph pituitary tumours.
Pituitary. 2018 21(4):443.
PubMed: 29468382 DOI: 10.1007/s11102-018-0879-1
527 Huvila J, Laajala TD, Edqvist PH, Mardinoglu A, Talve L, Pontén F, Grénman S, Carpén O, Aittokallio T, Auranen A.
Combined ASRGL1 and p53 immunohistochemistry as an independent predictor of survival in endometrioid endometrial carcinoma.
Gynecol Oncol. 2018 149(1):173-180.
PubMed: 29486992 DOI: 10.1016/j.ygyno.2018.02.016
526 Omenn GS, Lane L, Overall CM, Corrales FJ, Schwenk JM, Paik YK, Van Eyk JE, Liu S, Snyder M, Baker MS, Deutsch EW.
Progress on Identifying and Characterizing the Human Proteome: 2018 Metrics from the HUPO Human Proteome Project.
J Proteome Res. 2018 17(12):4031-4041.
PubMed: 30099871 DOI: 10.1021/acs.jproteome.8b00441
525 Djureinovic D, Dodig-Crnković T, Hellström C, Holgersson G, Bergqvist M, Mattsson JSM, Pontén F, Ståhle E, Schwenk JM, Micke P.
Detection of autoantibodies against cancer-testis antigens in non-small cell lung cancer.
Lung Cancer. 2018 125():157-163.
PubMed: 30429015 DOI: 10.1016/j.lungcan.2018.09.012
524 Mönnich M, Borgeskov L, Breslin L, Jakobsen L, Rogowski M, Doganli C, Schrøder JM, Mogensen JB, Blinkenkjær L, Harder LM, Lundberg E, Geimer S, Christensen ST, Andersen JS, Larsen LA, Pedersen LB.
CEP128 Localizes to the Subdistal Appendages of the Mother Centriole and Regulates TGF-β/BMP Signaling at the Primary Cilium.
Cell Rep. 2018 22(10):2584-2592.
PubMed: 29514088 DOI: 10.1016/j.celrep.2018.02.043
523 Guala D, Bernhem K, Blal HA, Jans D, Lundberg E, Brismar H, Sonnhammer ELL.
Experimental validation of predicted cancer genes using FRET.
Methods Appl Fluoresc. 2018 6(3):035007.
PubMed: 29570091 DOI: 10.1088/2050-6120/aab932
522 Edfors F, Hober A, Linderbäck K, Maddalo G, Azimi A, Sivertsson Å, Tegel H, Hober S, Szigyarto CA, Fagerberg L, von Feilitzen K, Oksvold P, Lindskog C, Forsström B, Uhlen M.
Enhanced validation of antibodies for research applications.
Nat Commun. 2018 9(1):4130.
PubMed: 30297845 DOI: 10.1038/s41467-018-06642-y
521 Lovric A, Granér M, Bjornson E, Arif M, Benfeitas R, Nyman K, Ståhlman M, Pentikäinen MO, Lundbom J, Hakkarainen A, Sirén R, Nieminen MS, Lundbom N, Lauerma K, Taskinen MR, Mardinoglu A, Boren J.
Characterization of different fat depots in NAFLD using inflammation-associated proteome, lipidome and metabolome.
Sci Rep. 2018 8(1):14200.
PubMed: 30242179 DOI: 10.1038/s41598-018-31865-w
520 Sjöstedt E, Sivertsson Å, Hikmet Noraddin F, Katona B, Näsström Å, Vuu J, Kesti D, Oksvold P, Edqvist PH, Olsson I, Uhlén M, Lindskog C.
Integration of Transcriptomics and Antibody-Based Proteomics for Exploration of Proteins Expressed in Specialized Tissues.
J Proteome Res. 2018 17(12):4127-4137.
PubMed: 30272454 DOI: 10.1021/acs.jproteome.8b00406
519 Lee S, Zhang C, Arif M, Liu Z, Benfeitas R, Bidkhori G, Deshmukh S, Al Shobky M, Lovric A, Boren J, Nielsen J, Uhlen M, Mardinoglu A.
TCSBN: a database of tissue and cancer specific biological networks.
Nucleic Acids Res. 2018 46(D1):D595-D600.
PubMed: 29069445 DOI: 10.1093/nar/gkx994
518 Mardinoglu A, Uhlen M, Borén J.
Broad Views of Non-alcoholic Fatty Liver Disease.
Cell Syst. 2018 6(1):7-9.
PubMed: 29401451 DOI: 10.1016/j.cels.2018.01.004
517 Mardinoglu A, Wu H, Bjornson E, Zhang C, Hakkarainen A, Räsänen SM, Lee S, Mancina RM, Bergentall M, Pietiläinen KH, Söderlund S, Matikainen N, Ståhlman M, Bergh PO, Adiels M, Piening BD, Granér M, Lundbom N, Williams KJ, Romeo S, Nielsen J, Snyder M, Uhlén M, Bergström G, Perkins R, Marschall HU, Bäckhed F, Taskinen MR, Borén J.
An Integrated Understanding of the Rapid Metabolic Benefits of a Carbohydrate-Restricted Diet on Hepatic Steatosis in Humans.
Cell Metab. 2018 27(3):559-571.e5.
PubMed: 29456073 DOI: 10.1016/j.cmet.2018.01.005
516 Karnevi E, Dror LB, Mardinoglu A, Elebro J, Heby M, Olofsson SE, Nodin B, Eberhard J, Gallagher W, Uhlén M, Jirström K.
Translational study reveals a two-faced role of RBM3 in pancreatic cancer and suggests its potential value as a biomarker for improved patient stratification.
Oncotarget. 2018 9(5):6188-6200.
PubMed: 29464064 DOI: 10.18632/oncotarget.23486
515 Azimi A, Caramuta S, Seashore-Ludlow B, Boström J, Robinson JL, Edfors F, Tuominen R, Kemper K, Krijgsman O, Peeper DS, Nielsen J, Hansson J, Egyhazi Brage S, Altun M, Uhlen M, Maddalo G.
Targeting CDK2 overcomes melanoma resistance against BRAF and Hsp90 inhibitors.
Mol Syst Biol. 2018 14(3):e7858.
PubMed: 29507054
514 Lee CY, Wang D, Wilhelm M, Zolg DP, Schmidt T, Schnatbaum K, Reimer U, Pontén F, Uhlén M, Hahne H, Kuster B.
Mining the Human Tissue Proteome for Protein Citrullination.
Mol Cell Proteomics. 2018 17(7):1378-1391.
PubMed: 29610271 DOI: 10.1074/mcp.RA118.000696
513 Mardinoglu A, Boren J, Smith U, Uhlen M, Nielsen J.
Systems biology in hepatology: approaches and applications.
Nat Rev Gastroenterol Hepatol. 2018 15(6):365-377.
PubMed: 29686404 DOI: 10.1038/s41575-018-0007-8
512 Turanli B, Grøtli M, Boren J, Nielsen J, Uhlen M, Arga KY, Mardinoglu A.
Drug Repositioning for Effective Prostate Cancer Treatment.
Front Physiol. 2018 9():500.
PubMed: 29867548 DOI: 10.3389/fphys.2018.00500
511 Zhang MD, Su J, Adori C, Cinquina V, Malenczyk K, Girach F, Peng C, Ernfors P, Löw P, Borgius L, Kiehn O, Watanabe M, Uhlén M, Mitsios N, Mulder J, Harkany T, Hökfelt T.
Ca2+-binding protein NECAB2 facilitates inflammatory pain hypersensitivity.
J Clin Invest. 2018 128(9):3757-3768.
PubMed: 29893745 DOI: 10.1172/JCI120913
510 Rosario D, Benfeitas R, Bidkhori G, Zhang C, Uhlen M, Shoaie S, Mardinoglu A.
Understanding the Representative Gut Microbiota Dysbiosis in Metformin-Treated Type 2 Diabetes Patients Using Genome-Scale Metabolic Modeling.
Front Physiol. 2018 9():775.
PubMed: 29988585 DOI: 10.3389/fphys.2018.00775
509 Bidkhori G, Benfeitas R, Elmas E, Kararoudi MN, Arif M, Uhlen M, Nielsen J, Mardinoglu A.
Metabolic Network-Based Identification and Prioritization of Anticancer Targets Based on Expression Data in Hepatocellular Carcinoma.
Front Physiol. 2018 9():916.
PubMed: 30065658 DOI: 10.3389/fphys.2018.00916
508 Matic LP, Jesus Iglesias M, Vesterlund M, Lengquist M, Hong MG, Saieed S, Sanchez-Rivera L, Berg M, Razuvaev A, Kronqvist M, Lund K, Caidahl K, Gillgren P, Pontén F, Uhlén M, Schwenk JM, Hansson GK, Paulsson-Berne G, Fagman E, Roy J, Hultgren R, Bergström G, Lehtiö J, Odeberg J, Hedin U.
Novel Multiomics Profiling of Human Carotid Atherosclerotic Plaques and Plasma Reveals Biliverdin Reductase B as a Marker of Intraplaque Hemorrhage.
JACC Basic Transl Sci. 2018 3(4):464-480.
PubMed: 30175270 DOI: 10.1016/j.jacbts.2018.04.001
507 Dusart P, Fagerberg L, Perisic L, Civelek M, Struck E, Hedin U, Uhlén M, Trégouët DA, Renné T, Odeberg J, Butler LM.
A systems-approach reveals human nestin is an endothelial-enriched, angiogenesis-independent intermediate filament protein.
Sci Rep. 2018 8(1):14668.
PubMed: 30279450 DOI: 10.1038/s41598-018-32859-4
506 O'Hagan S, Wright Muelas M, Day PJ, Lundberg E, Kell DB.
GeneGini: Assessment via the Gini Coefficient of Reference "Housekeeping" Genes and Diverse Human Transporter Expression Profiles.
Cell Syst. 2018 6(2):230-244.e1.
PubMed: 29428416 DOI: 10.1016/j.cels.2018.01.003
505 Aebersold R, Agar JN, Amster IJ, Baker MS, Bertozzi CR, Boja ES, Costello CE, Cravatt BF, Fenselau C, Garcia BA, Ge Y, Gunawardena J, Hendrickson RC, Hergenrother PJ, Huber CG, Ivanov AR, Jensen ON, Jewett MC, Kelleher NL, Kiessling LL, Krogan NJ, Larsen MR, Loo JA, Ogorzalek Loo RR, Lundberg E, MacCoss MJ, Mallick P, Mootha VK, Mrksich M, Muir TW, Patrie SM, Pesavento JJ, Pitteri SJ, Rodriguez H, Saghatelian A, Sandoval W, Schlüter H, Sechi S, Slavoff SA, Smith LM, Snyder MP, Thomas PM, Uhlén M, Van Eyk JE, Vidal M, Walt DR, White FM, Williams ER, Wohlschlager T, Wysocki VH, Yates NA, Young NL, Zhang B.
How many human proteoforms are there?
Nat Chem Biol. 2018 14(3):206-214.
PubMed: 29443976 DOI: 10.1038/nchembio.2576
504 Sullivan DP, Winsnes CF, Åkesson L, Hjelmare M, Wiking M, Schutten R, Campbell L, Leifsson H, Rhodes S, Nordgren A, Smith K, Revaz B, Finnbogason B, Szantner A, Lundberg E.
Deep learning is combined with massive-scale citizen science to improve large-scale image classification.
Nat Biotechnol. 2018 36(9):820-828.
PubMed: 30125267 DOI: 10.1038/nbt.4225
503 Danielsson F, Fasterius E, Sullivan D, Hases L, Sanli K, Zhang C, Mardinoglu A, Al-Khalili C, Huss M, Uhlén M, Williams C, Lundberg E.
Transcriptome profiling of the interconnection of pathways involved in malignant transformation and response to hypoxia.
Oncotarget. 2018 9(28):19730-19744.
PubMed: 29731978 DOI: 10.18632/oncotarget.24808
502 Sullivan DP, Lundberg E.
Seeing More: A Future of Augmented Microscopy.
Cell. 2018 173(3):546-548.
PubMed: 29677507 DOI: 10.1016/j.cell.2018.04.003
501 Sastry A, Monk J, Tegel H, Uhlen M, Palsson BO, Rockberg J, Brunk E.
Machine learning in computational biology to accelerate high-throughput protein expression.
Bioinformatics. 2017 33(16):2487-2495.
PubMed: 28398465 DOI: 10.1093/bioinformatics/btx207
500 Sen P, Mardinogulu A, Nielsen J.
Selection of complementary foods based on optimal nutritional values.
Sci Rep. 2017 7(1):5413.
PubMed: 28710451 DOI: 10.1038/s41598-017-05650-0
499 Romanov RA, Zeisel A, Bakker J, Girach F, Hellysaz A, Tomer R, Alpár A, Mulder J, Clotman F, Keimpema E, Hsueh B, Crow AK, Martens H, Schwindling C, Calvigioni D, Bains JS, Máté Z, Szabó G, Yanagawa Y, Zhang MD, Rendeiro A, Farlik M, Uhlén M, Wulff P, Bock C, Broberger C, Deisseroth K, Hökfelt T, Linnarsson S, Horvath TL, Harkany T.
Molecular interrogation of hypothalamic organization reveals distinct dopamine neuronal subtypes.
Nat Neurosci. 2017 20(2):176-188.
PubMed: 27991900 DOI: 10.1038/nn.4462
498 Malenczyk K, Girach F, Szodorai E, Storm P, Segerstolpe Å, Tortoriello G, Schnell R, Mulder J, Romanov RA, Borók E, Piscitelli F, Di Marzo V, Szabó G, Sandberg R, Kubicek S, Lubec G, Hökfelt T, Wagner L, Groop L, Harkany T.
A TRPV1-to-secretagogin regulatory axis controls pancreatic β-cell survival by modulating protein turnover.
EMBO J. 2017 36(14):2107-2125.
PubMed: 28637794 DOI: 10.15252/embj.201695347
497 Niinivirta M, Enblad G, Edqvist PH, Pontén F, Dragomir A, Ullenhag GJ.
Tumoral ANXA1 Is a Predictive Marker for Sunitinib Treatment of Renal Cancer Patients.
J Cancer. 2017 8(19):3975-3983.
PubMed: 29187872 DOI: 10.7150/jca.20889
496 Carreras-Puigvert J, Zitnik M, Jemth AS, Carter M, Unterlass JE, Hallström B, Loseva O, Karem Z, Calderón-Montaño JM, Lindskog C, Edqvist PH, Matuszewski DJ, Ait Blal H, Berntsson RPA, Häggblad M, Martens U, Studham M, Lundgren B, Wählby C, Sonnhammer ELL, Lundberg E, Stenmark P, Zupan B, Helleday T.
A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family.
Nat Commun. 2017 8(1):1541.
PubMed: 29142246 DOI: 10.1038/s41467-017-01642-w
495 Boström J, Sramkova Z, Salašová A, Johard H, Mahdessian D, Fedr R, Marks C, Medalová J, Souček K, Lundberg E, Linnarsson S, Bryja V, Sekyrova P, Altun M, Andäng M.
Comparative cell cycle transcriptomics reveals synchronization of developmental transcription factor networks in cancer cells.
PLoS One. 2017 12(12):e0188772.
PubMed: 29228002 DOI: 10.1371/journal.pone.0188772
494 Feizi A, Gatto F, Uhlen M, Nielsen J.
Human protein secretory pathway genes are expressed in a tissue-specific pattern to match processing demands of the secretome.
NPJ Syst Biol Appl. 2017 3():22.
PubMed: 28845240 DOI: 10.1038/s41540-017-0021-4
493 Regev A, Teichmann SA, Lander ES, Amit I, Benoist C, Birney E, Bodenmiller B, Campbell P, Carninci P, Clatworthy M, Clevers H, Deplancke B, Dunham I, Eberwine J, Eils R, Enard W, Farmer A, Fugger L, Göttgens B, Hacohen N, Haniffa M, Hemberg M, Kim S, Klenerman P, Kriegstein A, Lein E, Linnarsson S, Lundberg E, Lundeberg J, Majumder P, Marioni JC, Merad M, Mhlanga M, Nawijn M, Netea M, Nolan G, Pe'er D, Phillipakis A, Ponting CP, Quake S, Reik W, Rozenblatt-Rosen O, Sanes J, Satija R, Schumacher TN, Shalek A, Shapiro E, Sharma P, Shin JW, Stegle O, Stratton M, Stubbington MJT, Theis FJ, Uhlen M, van Oudenaarden A, Wagner A, Watt F, Weissman J, Wold B, Xavier R, Yosef N, Human Cell Atlas Meeting Participants.
The Human Cell Atlas.
Elife. 2017 6():.
PubMed: 29206104 DOI: 10.7554/eLife.27041
492 Birse KD, Romas LM, Guthrie BL, Nilsson P, Bosire R, Kiarie J, Farquhar C, Broliden K, Burgener AD.
Genital Injury Signatures and Microbiome Alterations Associated With Depot Medroxyprogesterone Acetate Usage and Intravaginal Drying Practices.
J Infect Dis. 2017 215(4):590-598.
PubMed: 28011908 DOI: 10.1093/infdis/jiw590
491 Svedberg G, Jeong Y, Na H, Jang J, Nilsson P, Kwon S, Gantelius J, Svahn HA.
Towards encoded particles for highly multiplexed colorimetric point of care autoantibody detection.
Lab Chip. 2017 17(3):549-556.
PubMed: 28102419 DOI: 10.1039/c6lc01358a
490 Checa A, Idborg H, Zandian A, Sar DG, Surowiec I, Trygg J, Svenungsson E, Jakobsson PJ, Nilsson P, Gunnarsson I, Wheelock CE.
Dysregulations in circulating sphingolipids associate with disease activity indices in female patients with systemic lupus erythematosus: a cross-sectional study.
Lupus. 2017 26(10):1023-1033.
PubMed: 28134039 DOI: 10.1177/0961203316686707
489 Ch'ng JH, Sirel M, Zandian A, Del Pilar Quintana M, Chun Leung Chan S, Moll K, Tellgren-Roth A, Nilsson I, Nilsson P, Qundos U, Wahlgren M.
Epitopes of anti-RIFIN antibodies and characterization of rif-expressing Plasmodium falciparum parasites by RNA sequencing.
Sci Rep. 2017 7():43190.
PubMed: 28233866 DOI: 10.1038/srep43190
488 Sierra-Sánchez Á, Garrido-Martín D, Lourido L, González-González M, Díez P, Ruiz-Romero C, Sjöber R, Droste C, De Las Rivas J, Nilsson P, Blanco F, Fuentes M.
Screening and Validation of Novel Biomarkers in Osteoarticular Pathologies by Comprehensive Combination of Protein Array Technologies.
J Proteome Res. 2017 16(5):1890-1899.
PubMed: 28379711 DOI: 10.1021/acs.jproteome.6b00980
487 Ge C, Tong D, Liang B, Lönnblom E, Schneider N, Hagert C, Viljanen J, Ayoglu B, Stawikowska R, Nilsson P, Fields GB, Skogh T, Kastbom A, Kihlberg J, Burkhardt H, Dobritzsch D, Holmdahl R.
Anti-citrullinated protein antibodies cause arthritis by cross-reactivity to joint cartilage.
JCI Insight. 2017 2(13):.
PubMed: 28679953 DOI: 10.1172/jci.insight.93688
486 Skogs M, Stadler C, Schutten R, Hjelmare M, Gnann C, Björk L, Poser I, Hyman A, Uhlén M, Lundberg E.
Antibody Validation in Bioimaging Applications Based on Endogenous Expression of Tagged Proteins.
J Proteome Res. 2017 16(1):147-155.
PubMed: 27723985 DOI: 10.1021/acs.jproteome.6b00821
485 Alkasalias T, Alexeyenko A, Hennig K, Danielsson F, Lebbink RJ, Fielden M, Turunen SP, Lehti K, Kashuba V, Madapura HS, Bozoky B, Lundberg E, Balland M, Guvén H, Klein G, Gad AK, Pavlova T.
RhoA knockout fibroblasts lose tumor-inhibitory capacity in vitro and promote tumor growth in vivo.
Proc Natl Acad Sci U S A. 2017 114(8):E1413-E1421.
PubMed: 28174275 DOI: 10.1073/pnas.1621161114
484 Omenn GS, Lane L, Lundberg EK, Overall CM, Deutsch EW.
Progress on the HUPO Draft Human Proteome: 2017 Metrics of the Human Proteome Project.
J Proteome Res. 2017 Epub ahead of print
PubMed: 28853897 DOI: 10.1021/acs.jproteome.7b00375
483 Ly T, Whigham A, Clarke R, Brenes-Murillo AJ, Estes B, Madhessian D, Lundberg E, Wadsworth P, Lamond AI.
Proteomic analysis of cell cycle progression in asynchronous cultures, including mitotic subphases, using PRIMMUS.
Elife. 2017 6():.
PubMed: 29052541 DOI: 10.7554/eLife.27574
482 Brunnström H, Johansson A, Westbom-Fremer S, Backman M, Djureinovic D, Patthey A, Isaksson-Mettävainio M, Gulyas M, Micke P.
PD-L1 immunohistochemistry in clinical diagnostics of lung cancer: inter-pathologist variability is higher than assay variability.
Mod Pathol. 2017 30(10):1411-1421.
PubMed: 28664936 DOI: 10.1038/modpathol.2017.59
481 Jedlinski A, Garvin S, Johansson AC, Edqvist PH, Ponten F, Roberg K.
Cetuximab sensitivity of head and neck squamous cell carcinoma xenografts is associated with treatment-induced reduction in EGFR, pEGFR, and pSrc.
J Oral Pathol Med. 2017 46(9):717-724.
PubMed: 28036101 DOI: 10.1111/jop.12545
480 Gremel G, Djureinovic D, Niinivirta M, Laird A, Ljungqvist O, Johannesson H, Bergman J, Edqvist PH, Navani S, Khan N, Patil T, Sivertsson Å, Uhlén M, Harrison DJ, Ullenhag GJ, Stewart GD, Pontén F.
A systematic search strategy identifies cubilin as independent prognostic marker for renal cell carcinoma.
BMC Cancer. 2017 17(1):9.
PubMed: 28052770 DOI: 10.1186/s12885-016-3030-6
479 Niinivirta M, Enblad G, Edqvist PH, Pontén F, Dragomir A, Ullenhag GJ.
Tumoral cubilin is a predictive marker for treatment of renal cancer patients with sunitinib and sorafenib.
J Cancer Res Clin Oncol. 2017 143(6):961-970.
PubMed: 28260162 DOI: 10.1007/s00432-017-2365-y
478 Grinberg M, Djureinovic D, Brunnström HR, Mattsson JS, Edlund K, Hengstler JG, La Fleur L, Ekman S, Koyi H, Branden E, Ståhle E, Jirström K, Tracy DK, Pontén F, Botling J, Rahnenführer J, Micke P.
Reaching the limits of prognostication in non-small cell lung cancer: an optimized biomarker panel fails to outperform clinical parameters.
Mod Pathol. 2017 30(7):964-977.
PubMed: 28281552 DOI: 10.1038/modpathol.2017.14
477 Bondeson ML, Ericson K, Gudmundsson S, Ameur A, Pontén F, Wesström J, Frykholm C, Wilbe M.
A nonsense mutation in CEP55 defines a new locus for a Meckel-like syndrome, an autosomal recessive lethal fetal ciliopathy.
Clin Genet. 2017 92(5):510-516.
PubMed: 28295209 DOI: 10.1111/cge.13012
476 Roy A, Attarha S, Weishaupt H, Edqvist PH, Swartling FJ, Bergqvist M, Siebzehnrubl FA, Smits A, Pontén F, Tchougounova E.
Serglycin as a potential biomarker for glioma: association of serglycin expression, extent of mast cell recruitment and glioblastoma progression.
Oncotarget. 2017 8(15):24815-24827.
PubMed: 28445977 DOI: 10.18632/oncotarget.15820
475 Roy A, Libard S, Weishaupt H, Gustavsson I, Uhrbom L, Hesselager G, Swartling FJ, Pontén F, Alafuzoff I, Tchougounova E.
Mast Cell Infiltration in Human Brain Metastases Modulates the Microenvironment and Contributes to the Metastatic Potential.
Front Oncol. 2017 7():115.
PubMed: 28626727 DOI: 10.3389/fonc.2017.00115
474 Casar-Borota O, Botling J, Granberg D, Stigare J, Wikström J, Boldt HB, Kristensen BW, Pontén F, Trouillas J.
Serotonin, ATRX, and DAXX Expression in Pituitary Adenomas: Markers in the Differential Diagnosis of Neuroendocrine Tumors of the Sellar Region.
Am J Surg Pathol. 2017 41(9):1238-1246.
PubMed: 28719461 DOI: 10.1097/PAS.0000000000000908
473 Siesing C, Sorbye H, Dragomir A, Pfeiffer P, Qvortrup C, Pontén F, Jirström K, Glimelius B, Eberhard J.
High RBM3 expression is associated with an improved survival and oxaliplatin response in patients with metastatic colorectal cancer.
PLoS One. 2017 12(8):e0182512.
PubMed: 28800641 DOI: 10.1371/journal.pone.0182512
472 Dos Remedios CG, Lal SP, Li A, McNamara J, Keogh A, Macdonald PS, Cooke R, Ehler E, Knöll R, Marston SB, Stelzer J, Granzier H, Bezzina C, van Dijk S, De Man F, Stienen GJM, Odeberg J, Pontén F, Linke , Linke W, van der Velden J.
The Sydney Heart Bank: improving translational research while eliminating or reducing the use of animal models of human heart disease.
Biophys Rev. 2017 9(4):431-441.
PubMed: 28808947 DOI: 10.1007/s12551-017-0305-3
471 Fredholm H, Magnusson K, Lindström LS, Tobin NP, Lindman H, Bergh J, Holmberg L, Pontén F, Frisell J, Fredriksson I.
Breast cancer in young women and prognosis: How important are proliferation markers?
Eur J Cancer. 2017 84():278-289.
PubMed: 28844016 DOI: 10.1016/j.ejca.2017.07.044
470 Zieba A, Ponten F, Uhlén M, Landegren U.
In situ protein detection with enhanced specificity using DNA-conjugated antibodies and proximity ligation.
Mod Pathol. 2017 Epub ahead of print
PubMed: 28937142 DOI: 10.1038/modpathol.2017.102
469 Sjöstedt E, Bollerslev J, Mulder J, Lindskog C, Pontén F, Casar-Borota O.
A specific antibody to detect transcription factor T-Pit: a reliable marker of corticotroph cell differentiation and a tool to improve the classification of pituitary neuroendocrine tumours.
Acta Neuropathol. 2017 Epub ahead of print
PubMed: 28823042 DOI: 10.1007/s00401-017-1768-9
468 Carapito C, Duek P, Macron C, Seffals M, Rondel K, Delalande F, Lindskog C, Fréour T, Vandenbrouck Y, Lane L, Pineau C.
Validating Missing Proteins in Human Sperm Cells by Targeted Mass-Spectrometry- and Antibody-based Methods.
J Proteome Res. 2017 Epub ahead of print
PubMed: 28891297 DOI: 10.1021/acs.jproteome.7b00374
467 Thul PJ, Lindskog C.
The human protein atlas: A spatial map of the human proteome.
Protein Sci. 2017 Epub ahead of print
PubMed: 28940711 DOI: 10.1002/pro.3307
466 Guo J, Grow EJ, Yi C, Mlcochova H, Maher GJ, Lindskog C, Murphy PJ, Wike CL, Carrell DT, Goriely A, Hotaling JM, Cairns BR.
Chromatin and Single-Cell RNA-Seq Profiling Reveal Dynamic Signaling and Metabolic Transitions during Human Spermatogonial Stem Cell Development.
Cell Stem Cell. 2017 21(4):533-546.e6.
PubMed: 28985528 DOI: 10.1016/j.stem.2017.09.003
465 Bosley J, Boren C, Lee S, Grøtli M, Nielsen J, Uhlen M, Boren J, Mardinoglu A.
Improving the economics of NASH/NAFLD treatment through the use of systems biology.
Drug Discov Today. 2017 22(10):1532-1538.
PubMed: 28736156 DOI: 10.1016/j.drudis.2017.07.005
464 Liu Z, Que S, Mardinoglu A.
Rediscussion on linearity between fibrosis stages and mortality risk in nonalcoholic fatty liver disease patients.
Hepatology. 2017 66(4):1357-1358.
PubMed: 28727167 DOI: 10.1002/hep.29390
463 Liu Z, Que S, Zhou L, Zheng S, Romeo S, Mardinoglu A, Valenti L.
The effect of the TM6SF2 E167K variant on liver steatosis and fibrosis in patients with chronic hepatitis C: a meta-analysis.
Sci Rep. 2017 7(1):9273.
PubMed: 28839198 DOI: 10.1038/s41598-017-09548-9
462 Lee S, Zhang C, Liu Z, Klevstig M, Mukhopadhyay B, Bergentall M, Cinar R, Ståhlman M, Sikanic N, Park JK, Deshmukh S, Harzandi AM, Kuijpers T, Grøtli M, Elsässer SJ, Piening BD, Snyder M, Smith U, Nielsen J, Bäckhed F, Kunos G, Uhlen M, Boren J, Mardinoglu A.
Network analyses identify liver-specific targets for treating liver diseases.
Mol Syst Biol. 2017 13(8):938.
PubMed: 28827398
461 Mardinoglu A, Stančáková A, Lotta LA, Kuusisto J, Boren J, Blüher M, Wareham NJ, Ferrannini E, Groop PH, Laakso M, Langenberg C, Smith U.
Plasma Mannose Levels Are Associated with Incident Type 2 Diabetes and Cardiovascular Disease.
Cell Metab. 2017 26(2):281-283.
PubMed: 28768165 DOI: 10.1016/j.cmet.2017.07.006
460 Benfeitas R, Uhlen M, Nielsen J, Mardinoglu A.
New Challenges to Study Heterogeneity in Cancer Redox Metabolism.
Front Cell Dev Biol. 2017 5():65.
PubMed: 28744456 DOI: 10.3389/fcell.2017.00065
459 Mardinoglu A, Borén J.
AUP1 (Ancient Ubiquitous Protein 1): A Molecular Link Between Hepatic Lipid Mobilization and VLDL Secretion.
Arterioscler Thromb Vasc Biol. 2017 37(4):609-610.
PubMed: 28330944 DOI: 10.1161/ATVBAHA.117.309152
458 Mardinoglu A, Bjornson E, Zhang C, Klevstig M, Söderlund S, Ståhlman M, Adiels M, Hakkarainen A, Lundbom N, Kilicarslan M, Hallström BM, Lundbom J, Vergès B, Barrett PH, Watts GF, Serlie MJ, Nielsen J, Uhlén M, Smith U, Marschall HU, Taskinen MR, Boren J.
Personal model-assisted identification of NAD(+) and glutathione metabolism as intervention target in NAFLD.
Mol Syst Biol. 2017 13(3):916.
PubMed: 28254760
457 Nilsson A, Mardinoglu A, Nielsen J.
Predicting growth of the healthy infant using a genome scale metabolic model.
NPJ Syst Biol Appl. 2017 3():3.
PubMed: 28649430 DOI: 10.1038/s41540-017-0004-5
456 Schwenk JM, Omenn GS, Sun Z, Campbell DS, Baker MS, Overall CM, Aebersold R, Moritz RL, Deutsch EW.
The Human Plasma Proteome Draft of 2017: Building on the Human Plasma PeptideAtlas from Mass Spectrometry and Complementary Assays.
J Proteome Res. 2017 Epub ahead of print
PubMed: 28938075 DOI: 10.1021/acs.jproteome.7b00467
455 Zandian A, Wingård L, Nilsson H, Sjöstedt E, Johansson DX, Just D, Hellström C, Uhlén M, Schwenk JM, Häggmark-Månberg A, Norbeck O, Owe-Larsson B, Nilsson P, Persson MAA.
Untargeted screening for novel autoantibodies with prognostic value in first-episode psychosis.
Transl Psychiatry. 2017 7(7):e1177.
PubMed: 28742074 DOI: 10.1038/tp.2017.160
454 Glimelius B, Melin B, Enblad G, Alafuzoff I, Beskow A, Ahlström H, Bill-Axelson A, Birgisson H, Björ O, Edqvist PH, Hansson T, Helleday T, Hellman P, Henriksson K, Hesselager G, Hultdin M, Häggman M, Höglund M, Jonsson H, Larsson C, Lindman H, Ljuslinder I, Mindus S, Nygren P, Pontén F, Riklund K, Rosenquist R, Sandin F, Schwenk JM, Stenling R, Stålberg K, Stålberg P, Sundström C, Thellenberg Karlsson C, Westermark B, Bergh A, Claesson-Welsh L, Palmqvist R, Sjöblom T.
U-CAN: a prospective longitudinal collection of biomaterials and clinical information from adult cancer patients in Sweden.
Acta Oncol. 2017 ():1-8.
PubMed: 28631533 DOI: 10.1080/0284186X.2017.1337926
453 Byström S, Fredolini C, Edqvist PH, Nyaiesh EN, Drobin K, Uhlén M, Bergqvist M, Pontén F, Schwenk JM.
Affinity Proteomics Exploration of Melanoma Identifies Proteins in Serum with Associations to T-Stage and Recurrence.
Transl Oncol. 2017 10(3):385-395.
PubMed: 28433799 DOI: 10.1016/j.tranon.2017.03.002
452 Omazic B, Ayoglu B, Löhr M, Segersvärd R, Verbeke C, Magalhaes I, Potacova Z, Mattsson J, Terman A, Ghazi S, Albiin N, Kartalis N, Nilsson P, Poiret T, Zhenjiang L, Heuchel R, Schwenk JM, Permert J, Maeurer MJ, Ringden O.
A Preliminary Report: Radical Surgery and Stem Cell Transplantation for the Treatment of Patients With Pancreatic Cancer.
J Immunother. 2017 Epub ahead of print
PubMed: 28338506 DOI: 10.1097/CJI.0000000000000164
451 Lourido L, Ayoglu B, Fernández-Tajes J, Oreiro N, Henjes F, Hellström C, Schwenk JM, Ruiz-Romero C, Nilsson P, Blanco FJ.
Discovery of circulating proteins associated to knee radiographic osteoarthritis.
Sci Rep. 2017 7(1):137.
PubMed: 28273936 DOI: 10.1038/s41598-017-00195-8
450 Zandian A, Forsström B, Häggmark-Månberg A, Schwenk JM, Uhlén M, Nilsson P, Ayoglu B.
Whole-Proteome Peptide Microarrays for Profiling Autoantibody Repertoires within Multiple Sclerosis and Narcolepsy.
J Proteome Res. 2017 16(3):1300-1314.
PubMed: 28121444 DOI: 10.1021/acs.jproteome.6b00916
449 Hellström C, Dodig-Crnković T, Hong MG, Schwenk JM, Nilsson P, Sjöberg R.
High-Density Serum/Plasma Reverse Phase Protein Arrays.
Methods Mol Biol. 2017 1619():229-238.
PubMed: 28674890 DOI: 10.1007/978-1-4939-7057-5_18
448 Birgersson E, Schwenk JM, Ayoglu B.
Bead-Based and Multiplexed Immunoassays for Protein Profiling via Sequential Affinity Capture.
Methods Mol Biol. 2017 1619():45-54.
PubMed: 28674876 DOI: 10.1007/978-1-4939-7057-5_4
447 Häggmark-Månberg A, Nilsson P, Schwenk JM.
Neuroproteomic Profiling of Cerebrospinal Fluid (CSF) by Multiplexed Affinity Arrays.
Methods Mol Biol. 2017 1598():247-254.
PubMed: 28508365 DOI: 10.1007/978-1-4939-6952-4_11
446 Uhlen M, Zhang C, Lee S, Sjöstedt E, Fagerberg L, Bidkhori G, Benfeitas R, Arif M, Liu Z, Edfors F, Sanli K, von Feilitzen K, Oksvold P, Lundberg E, Hober S, Nilsson P, Mattsson J, Schwenk JM, Brunnström H, Glimelius B, Sjöblom T, Edqvist PH, Djureinovic D, Micke P, Lindskog C, Mardinoglu A, Ponten F.
A pathology atlas of the human cancer transcriptome.
Science. 2017 357(6352)
PubMed: 28818916 DOI: 10.1126/science.aan2507
445 Thul PJ, Åkesson L, Wiking M, Mahdessian D, Geladaki A, Ait Blal H, Alm T, Asplund A, Björk L, Breckels LM, Bäckström A, Danielsson F, Fagerberg L, Fall J, Gatto L, Gnann C, Hober S, Hjelmare M, Johansson F, Lee S, Lindskog C, Mulder J, Mulvey CM, Nilsson P, Oksvold P, Rockberg J, Schutten R, Schwenk JM, Sivertsson Å, Sjöstedt E, Skogs M, Stadler C, Sullivan DP, Tegel H, Winsnes C, Zhang C, Zwahlen M, Mardinoglu A, Pontén F, von Feilitzen K, Lilley KS, Uhlén M, Lundberg E.
A subcellular map of the human proteome.
Science. 2017 356(6340): eaal3321
PubMed: 28495876 DOI: 10.1126/science.aal3321 Free access: Abstract, Full text, Reprint
444 Malm M, Frejd FY, Ståhl S, Löfblom J.
Targeting HER3 using mono- and bispecific antibodies or alternative scaffolds.
MAbs. 2016 8(7):1195-1209.
PubMed: 27532938 DOI: 10.1080/19420862.2016.1212147
443 Scharaw S, Iskar M, Ori A, Boncompain G, Laketa V, Poser I, Lundberg E, Perez F, Beck M, Bork P, Pepperkok R.
The endosomal transcriptional regulator RNF11 integrates degradation and transport of EGFR.
J Cell Biol. 2016 215(4):543-558.
PubMed: 27872256 DOI: 10.1083/jcb.201601090
442 Sialana FJ, Gulyassy P, Májek P, Sjöstedt E, Kis V, Müller AC, Rudashevskaya EL, Mulder J, Bennett KL, Lubec G.
Mass spectrometric analysis of synaptosomal membrane preparations for the determination of brain receptors, transporters and channels.
Proteomics. 2016 16(22):2911-2920.
PubMed: 27759936 DOI: 10.1002/pmic.201600234
441 Micke P, Mattsson JS, Djureinovic D, Nodin B, Jirström K, Tran L, Jönsson P, Planck M, Botling J, Brunnström H.
The Impact of the Fourth Edition of the WHO Classification of Lung Tumours on Histological Classification of Resected Pulmonary NSCCs.
J Thorac Oncol. 2016 11(6):862-72.
PubMed: 26872818 DOI: 10.1016/j.jtho.2016.01.020
440 Edfors F, Danielsson F, Hallström BM, Käll L, Lundberg E, Pontén F, Forsström B, Uhlén M.
Gene-specific correlation of RNA and protein levels in human cells and tissues.
Mol Syst Biol. 2016 12(10):883.
PubMed: 27951527 DOI: 10.15252/msb.20167144
439 van Kempen LC, Redpath M, Elchebly M, Klein KO, Papadakis AI, Wilmott JS, Scolyer RA, Edqvist PH, Pontén F, Schadendorf D, van Rijk AF, Michiels S, Dumay A, Helbling-Leclerc A, Dessen P, Wouters J, Stass M, Greenwood CM, Ghanem GE, van den Oord J, Feunteun J, Spatz A.
The protein phosphatase 2A regulatory subunit PR70 is a gonosomal melanoma tumor suppressor gene.
Sci Transl Med. 2016 8(369):369ra177.
PubMed: 27974665 DOI: 10.1126/scitranslmed.aai9188
438 Ten Berge JC, van Rosmalen J, Vermeer J, Hellström C, Lindskog C, Nilsson P, Qundos U, Rothova A, Schreurs MW.
Serum Autoantibody Profiling of Patients with Paraneoplastic and Non-Paraneoplastic Autoimmune Retinopathy.
PLoS One. 2016 11(12):e0167909.
PubMed: 27930731 DOI: 10.1371/journal.pone.0167909
437 Mardinoglu A, Nielsen J.
Editorial: The Impact of Systems Medicine on Human Health and Disease.
Front Physiol. 2016 7():552.
PubMed: 27932988 DOI: 10.3389/fphys.2016.00552
436 Casey JR, Mardinoglu A, Nielsen J, Karl DM.
Adaptive Evolution of Phosphorus Metabolism in Prochlorococcus.
mSystems. 2016 1(6):.
PubMed: 27868089 DOI: 10.1128/mSystems.00065-16
435 Magnusson K, Gremel G, Rydén L, Pontén V, Uhlén M, Dimberg A, Jirström K, Pontén F.
ANLN is a prognostic biomarker independent of Ki-67 and essential for cell cycle progression in primary breast cancer.
BMC Cancer. 2016 16(1):904.
PubMed: 27863473 DOI: 10.1186/s12885-016-2923-8
434 Bergman J, Botling J, Fagerberg L, Hallström BM, Djureinovic D, Uhlén M, Pontén F.
The human adrenal gland proteome defined by transcriptomics and antibody-based profiling.
Endocrinology. 2016 ():en20161758.
PubMed: 27901589 DOI: 10.1210/en.2016-1758
433 Kannan P, Schain M, Kretzschmar WW, Weidner L, Mitsios N, Gulyás B, Blom H, Gottesman MM, Innis RB, Hall MD, Mulder J.
An automated method measures variability in P-glycoprotein and ABCG2 densities across brain regions and brain matter.
J Cereb Blood Flow Metab. 2016 Epub ahead of print
PubMed: 27488911 DOI: 10.1177/0271678X16660984
432 Musunuri S, Khoonsari PE, Mikus M, Wetterhall M, Häggmark-Mänberg A, Lannfelt L, Erlandsson A, Bergquist J, Ingelsson M, Shevchenko G, Nilsson P, Kultima K.
Increased Levels of Extracellular Microvesicle Markers and Decreased Levels of Endocytic/Exocytic Proteins in the Alzheimer's Disease Brain.
J Alzheimers Dis. 2016 54(4):1671-1686.
PubMed: 27636840 DOI: 10.3233/JAD-160271
431 Thelin EP, Just D, Frostell A, Häggmark-Månberg A, Risling M, Svensson M, Nilsson P, Bellander BM.
Protein profiling in serum after traumatic brain injury in rats reveals potential injury markers.
Behav Brain Res. 2016 Epub ahead of print
PubMed: 27591967 DOI: 10.1016/j.bbr.2016.08.058
430 Ayoglu B, Schwenk JM, Nilsson P.
Antigen arrays for profiling autoantibody repertoires.
Bioanalysis. 2016 8(10):1105-26.
PubMed: 27097564 DOI: 10.4155/bio.16.31
429 Schrötter A, Park YM, Marcus K, Martins-de-Souza D, Nilsson P, Magraoui FE, Meyer HE, Grinberg LT.
Key players in neurodegenerative disorders in focus-New insights into the proteomic profile of Alzheimer's disease, schizophrenia, ALS, and multiple sclerosis-24th HUPO BPP Workshop: September 29, 2015, Vancouver, Canada.
Proteomics. 2016 16(7):1047-50.
PubMed: 26872682 DOI: 10.1002/pmic.201600047
428 Khoonsari PE, Häggmark A, Lönnberg M, Mikus M, Kilander L, Lannfelt L, Bergquist J, Ingelsson M, Nilsson P, Kultima K, Shevchenko G.
Analysis of the Cerebrospinal Fluid Proteome in Alzheimer's Disease.
PLoS One. 2016 11(3):e0150672.
PubMed: 26950848 DOI: 10.1371/journal.pone.0150672
427 Mardinoglu A, Boren J, Smith U.
Confounding Effects of Metformin on the Human Gut Microbiome in Type 2 Diabetes.
Cell Metab. 2016 23(1):10-2.
PubMed: 26771114 DOI: 10.1016/j.cmet.2015.12.012
426 Björnson E, Borén J, Mardinoglu A.
Personalized Cardiovascular Disease Prediction and Treatment-A Review of Existing Strategies and Novel Systems Medicine Tools.
Front Physiol. 2016 7():2.
PubMed: 26858650 DOI: 10.3389/fphys.2016.00002
425 Elsemman IE, Mardinoglu A, Shoaie S, Soliman TH, Nielsen J.
Systems biology analysis of hepatitis C virus infection reveals the role of copy number increases in regions of chromosome 1q in hepatocellular carcinoma metabolism.
Mol Biosyst. 2016 12(5):1496-506.
PubMed: 27040643 DOI: 10.1039/c5mb00827a
424 Lee S, Mardinoglu A, Zhang C, Lee D, Nielsen J.
Dysregulated signaling hubs of liver lipid metabolism reveal hepatocellular carcinoma pathogenesis.
Nucleic Acids Res. 2016 44(12):5529-39.
PubMed: 27216817 DOI: 10.1093/nar/gkw462
423 Zhang C, Lee S, Mardinoglu A, Hua Q.
Investigating the Combinatory Effects of Biological Networks on Gene Co-expression.
Front Physiol. 2016 7():160.
PubMed: 27445830 DOI: 10.3389/fphys.2016.00160
422 Chaudhari A, Håversen L, Mobini R, Andersson L, Ståhlman M, Lu E, Rutberg M, Fogelstrand P, Ekroos K, Mardinoglu A, Levin M, Perkins R, Borén J.
ARAP2 promotes GLUT1-mediated basal glucose uptake through regulation of sphingolipid metabolism.
Biochim Biophys Acta. 2016 1861(11):1643-1651.
PubMed: 27476102 DOI: 10.1016/j.bbalip.2016.07.009
421 Heinonen S, Muniandy M, Buzkova J, Mardinoglu A, Rodríguez A, Frühbeck G, Hakkarainen A, Lundbom J, Lundbom N, Kaprio J, Rissanen A, Pietiläinen KH.
Mitochondria-related transcriptional signature is downregulated in adipocytes in obesity: a study of young healthy MZ twins.
Diabetologia. 2016 Epub ahead of print
PubMed: 27734103 DOI: 10.1007/s00125-016-4121-2
420 Larsson AH, Lehn S, Wangefjord S, Karnevi E, Kuteeva E, Sundström M, Nodin B, Uhlén M, Eberhard J, Birgisson H, Jirström K.
Significant association and synergistic adverse prognostic effect of podocalyxin-like protein and epidermal growth factor receptor expression in colorectal cancer.
J Transl Med. 2016 14(1):128.
PubMed: 27160084 DOI: 10.1186/s12967-016-0882-0
419 Lee S, Zhang C, Kilicarslan M, Piening BD, Bjornson E, Hallström BM, Groen AK, Ferrannini E, Laakso M, Snyder M, Blüher M, Uhlen M, Nielsen J, Smith U, Serlie MJ, Boren J, Mardinoglu A.
Integrated Network Analysis Reveals an Association between Plasma Mannose Levels and Insulin Resistance.
Cell Metab. 2016 24(1):172-84.
PubMed: 27345421 DOI: 10.1016/j.cmet.2016.05.026
418 Mardinoglu A, Uhlén M.
Liver: Phenotypic and genetic variance: a systems approach to the liver.
Nat Rev Gastroenterol Hepatol. 2016 13(8):439-40.
PubMed: 27329803 DOI: 10.1038/nrgastro.2016.93
417 Mattsson JS, Brunnström H, Jabs V, Edlund K, Jirström K, Mindus S, la Fleur L, Pontén F, Karlsson MG, Karlsson C, Koyi H, Brandén E, Botling J, Helenius G, Micke P, Svensson MA.
Inconsistent results in the analysis of ALK rearrangements in non-small cell lung cancer.
BMC Cancer. 2016 16():603.
PubMed: 27495736 DOI: 10.1186/s12885-016-2646-x
416 Delforoush M, Berglund M, Edqvist PH, Sundström C, Gullbo J, Enblad G.
Expression of possible targets for new proteasome inhibitors in diffuse large B-cell lymphoma.
Eur J Haematol. 2016 Epub ahead of print
PubMed: 27301795 DOI: 10.1111/ejh.12784
415 Boije H, Shirazi Fard S, Edqvist PH, Hallböök F.
Horizontal Cells, the Odd Ones Out in the Retina, Give Insights into Development and Disease.
Front Neuroanat. 2016 10():77.
PubMed: 27486389 DOI: 10.3389/fnana.2016.00077
414 Ståhl PL, Salmén F, Vickovic S, Lundmark A, Navarro JF, Magnusson J, Giacomello S, Asp M, Westholm JO, Huss M, Mollbrink A, Linnarsson S, Codeluppi S, Borg Å, Pontén F, Costea PI, Sahlén P, Mulder J, Bergmann O, Lundeberg J, Frisén J.
Visualization and analysis of gene expression in tissue sections by spatial transcriptomics.
Science. 2016 353(6294):78-82.
PubMed: 27365449 DOI: 10.1126/science.aaf2403
413 Wallerius M, Wallmann T, Bartish M, Östling J, Mezheyeuski A, Tobin NP, Nygren E, Pangigadde P, Pellegrini P, Squadrito ML, Pontén F, Hartman J, Bergh J, De Milito A, De Palma M, Östman A, Andersson J, Rolny C.
Guidance Molecule SEMA3A Restricts Tumor Growth by Differentially Regulating the Proliferation of Tumor-Associated Macrophages.
Cancer Res. 2016 76(11):3166-78.
PubMed: 27197153 DOI: 10.1158/0008-5472.CAN-15-2596
412 Mezheyeuski A, Lindh MB, Guren TK, Dragomir A, Pfeiffer P, Kure EH, Ikdahl T, Skovlund E, Corvigno S, Strell C, Pietras K, Ponten F, Mulder J, Qvortrup C, Portyanko A, Tveit KM, Glimelius B, Sorbye H, Östman A.
Survival-associated heterogeneity of marker-defined perivascular cells in colorectal cancer.
Oncotarget. 2016 Epub ahead of print
PubMed: 27248825 DOI: 10.18632/oncotarget.9632
411 Zetterling M, Roodakker KR, Berntsson SG, Edqvist PH, Latini F, Landtblom AM, Pontén F, Alafuzoff I, Larsson EM, Smits A.
Extension of diffuse low-grade gliomas beyond radiological borders as shown by the coregistration of histopathological and magnetic resonance imaging data.
J Neurosurg. 2016 ():1-12.
PubMed: 26918468 DOI: 10.3171/2015.10.JNS15583
410 Manojlovic-Gacic E, Skender-Gazibara M, Popovic V, Soldatovic I, Boricic N, Raicevic S, Pekic S, Doknic M, Miljic D, Alafuzoff I, Pontén F, Casar-Borota O.
Oncogene-Induced Senescence in Pituitary Adenomas--an Immunohistochemical Study.
Endocr Pathol. 2016 27(1):1-11.
PubMed: 26573928 DOI: 10.1007/s12022-015-9405-4
409 Landegren N, Sharon D, Freyhult E, Hallgren Å, Eriksson D, Edqvist PH, Bensing S, Wahlberg J, Nelson LM, Gustafsson J, Husebye ES, Anderson MS, Snyder M, Kämpe O.
Proteome-wide survey of the autoimmune target repertoire in autoimmune polyendocrine syndrome type 1.
Sci Rep. 2016 6():20104.
PubMed: 26830021 DOI: 10.1038/srep20104
408 Hellström-Lindahl E, Danielsson A, Ponten F, Czernichow P, Korsgren O, Johansson L, Eriksson O.
GPR44 is a pancreatic protein restricted to the human beta cell.
Acta Diabetol. 2016 53(3):413-21.
PubMed: 26467464 DOI: 10.1007/s00592-015-0811-3
407 Lindskog C, Asplund A, Catrina A, Nielsen S, Rützler M.
A Systematic Characterization of Aquaporin-9 Expression in Human Normal and Pathological Tissues.
J Histochem Cytochem. 2016 64(5):287-300.
PubMed: 27026296 DOI: 10.1369/0022155416641028
406 Hamsten C, Häggmark A, Grundström J, Mikus M, Lindskog C, Konradsen JR, Eklund A, Pershagen G, Wickman M, Grunewald J, Melén E, Hedlin G, Nilsson P, van Hage M.
Protein profiles of CCL5, HPGDS, and NPSR1 in plasma reveal association with childhood asthma.
Allergy. 2016 71(9):1357-61.
PubMed: 27145233 DOI: 10.1111/all.12927
405 Lindskog C.
The Human Protein Atlas - an important resource for basic and clinical research.
Expert Rev Proteomics. 2016 13(7):627-9.
PubMed: 27276068 DOI: 10.1080/14789450.2016.1199280
404 Vandenbrouck Y, Lane L, Carapito C, Duek P, Rondel K, Bruley C, Macron C, Gonzalez de Peredo A, Couté Y, Chaoui K, Com E, Gateau A, Hesse AM, Marcellin M, Méar L, Mouton-Barbosa E, Robin T, Burlet-Schiltz O, Cianferani S, Ferro M, Fréour T, Lindskog C, Garin J, Pineau C.
Looking for Missing Proteins in the Proteome of Human Spermatozoa: An Update.
J Proteome Res. 2016 Epub ahead of print
PubMed: 27444420 DOI: 10.1021/acs.jproteome.6b00400
403 Volk AL, Hu FJ, Berglund MM, Nordling E, Strömberg P, Uhlen M, Rockberg J.
Stratification of responders towards eculizumab using a structural epitope mapping strategy.
Sci Rep. 2016 6():31365.
PubMed: 27509843 DOI: 10.1038/srep31365
402 Uhlén M, Hallström BM, Lindskog C, Mardinoglu A, Pontén F, Nielsen J.
Transcriptomics resources of human tissues and organs.
Mol Syst Biol. 2016 12(4):862.
PubMed: 27044256
401 Pozniak Y, Balint-Lahat N, Rudolph JD, Lindskog C, Katzir R, Avivi C, Pontén F, Ruppin E, Barshack I, Geiger T.
System-wide Clinical Proteomics of Breast Cancer Reveals Global Remodeling of Tissue Homeostasis.
Cell Syst. 2016 2(3):172-84.
PubMed: 27135363 DOI: 10.1016/j.cels.2016.02.001
400 Fukuhara M, Agnarsdóttir M, Edqvist PH, Coter A, Ponten F.
SATB2 is expressed in Merkel cell carcinoma.
Arch Dermatol Res. 2016 308(6):449-54.
PubMed: 27262585 DOI: 10.1007/s00403-016-1655-6
399 Lal S, Nguyen L, Tezone R, Ponten F, Odeberg J, Li A, Dos Remedios C.
Tissue microarray profiling in human heart failure.
Proteomics. 2016 16(17):2319-26.
PubMed: 27364902 DOI: 10.1002/pmic.201600135
398 Fredholm H, Magnusson K, Lindström LS, Garmo H, Fält SE, Lindman H, Bergh J, Holmberg L, Pontén F, Frisell J, Fredriksson I.
Long-term outcome in young women with breast cancer: a population-based study.
Breast Cancer Res Treat. 2016 160(1):131-143.
PubMed: 27624330 DOI: 10.1007/s10549-016-3983-9
397 Roodakker KR, Elsir T, Edqvist PD, Hägerstrand D, Carlson J, Lysiak M, Henriksson R, Pontén F, Rosell J, Söderkvist P, Stupp R, Tchougounova E, Nistér M, Malmström A, Smits A.
PROX1 is a novel pathway-specific prognostic biomarker for high-grade astrocytomas; results from independent glioblastoma cohorts stratified by age and IDH mutation status.
Oncotarget. 2016 Epub ahead of print
PubMed: 27626492 DOI: 10.18632/oncotarget.11957
396 Butler LM, Hallström BM, Fagerberg L, Pontén F, Uhlén M, Renné T, Odeberg J.
Analysis of Body-wide Unfractionated Tissue Data to Identify a Core Human Endothelial Transcriptome.
Cell Syst. 2016 3(3):287-301.e3.
PubMed: 27641958 DOI: 10.1016/j.cels.2016.08.001
395 Eriksson O, Asplund A, Hegde G, Edqvist PH, Navani S, Pontén F, Siegbahn A.
A stromal cell population in the large intestine identified by tissue factor expression that is lost during colorectal cancer progression.
Thromb Haemost. 2016 116(6):.
PubMed: 27656710 DOI: 10.1160/TH16-04-0267
394 Djureinovic D, Hallström BM, Horie M, Mattsson JS, La Fleur L, Fagerberg L, Brunnström H, Lindskog C, Madjar K, Rahnenführer J, Ekman S, Ståhle E, Koyi H, Brandén E, Edlund K, Hengstler JG, Lambe M, Saito A, Botling J, Pontén F, Uhlén M, Micke P.
Profiling cancer testis antigens in non-small-cell lung cancer.
JCI Insight. 2016 1(10):e86837.
PubMed: 27699219 DOI: 10.1172/jci.insight.86837
393 Pin E, Henjes F, Hong MG, Wiklund F, Magnusson P, Bjartell A, Uhlén M, Nilsson P, Schwenk JM.
Identification Of A Novel Autoimmune Peptide Epitope Of Prostein In Prostate Cancer.
J Proteome Res. 2016 Epub ahead of print
PubMed: 27700103 DOI: 10.1021/acs.jproteome.6b00620
392 Remnestål J, Just D, Mitsios N, Fredolini C, Mulder J, Schwenk JM, Uhlén M, Kultima K, Ingelsson M, Kilander L, Lannfelt L, Svenningsson P, Nellgård B, Zetterberg H, Blennow K, Nilsson P, Häggmark-Månberg A.
CSF profiling of the human brain enriched proteome reveals associations of neuromodulin and neurogranin to Alzheimer's disease.
Proteomics Clin Appl. 2016 Epub ahead of print
PubMed: 27604409 DOI: 10.1002/prca.201500150
391 Hong MG, Lee W, Nilsson P, Pawitan Y, Schwenk JM.
Multidimensional Normalization to Minimize Plate Effects of Suspension Bead Array Data.
J Proteome Res. 2016 15(10):3473-3480.
PubMed: 27570895 DOI: 10.1021/acs.jproteome.5b01131
390 Hamsten C, Wiklundh E, Grönlund H, Schwenk JM, Uhlén M, Eklund A, Nilsson P, Grunewald J, Häggmark-Månberg A.
Elevated levels of FN1 and CCL2 in bronchoalveolar lavage fluid from sarcoidosis patients.
Respir Res. 2016 17(1):69.
PubMed: 27259755 DOI: 10.1186/s12931-016-0381-0
389 Mikus M, Drobin K, Gry M, Bachmann J, Lindberg J, Yimer G, Aklillu E, Makonnen E, Aderaye G, Roach J, Fier I, Kampf C, Göpfert J, Perazzo H, Poynard T, Stephens C, Andrade RJ, Lucena MI, Arber N, Uhlén M, Watkins PB, Schwenk JM, Nilsson P, Schuppe-Koistinen I.
Elevated levels of circulating CDH5 and FABP1 in association with human drug-induced liver injury.
Liver Int. 2016 Epub ahead of print
PubMed: 27224670 DOI: 10.1111/liv.13174
388 Häggmark-Månberg A, Zandian A, Forsström B, Khademi M, Lima Bomfim I, Hellström C, Arnheim-Dahlström L, Hallböök T, Darin N, Lundberg IE, Uhlén M, Partinen M, Schwenk JM, Olsson T, Nilsson P.
Autoantibody targets in vaccine-associated narcolepsy.
Autoimmunity. 2016 ():1-13.
PubMed: 27206786 DOI: 10.1080/08916934.2016.1183655
387 Amit I, Baker D, Barker R, Berger B, Bertozzi C, Bhatia S, Biffi A, Demichelis F, Doudna J, Dowdy SF, Endy D, Helmstaedter M, Junca H, June C, Kamb S, Khvorova A, Kim DH, Kim JS, Krishnan Y, Lakadamyali M, Lappalainen T, Lewin S, Liao J, Loman N, Lundberg E, Lynd L, Martin C, Mellman I, Miyawaki A, Mummery C, Nelson K, Paz J, Peralta-Yahya P, Picotti P, Polyak K, Prather K, Qin J, Quake S, Regev A, Rogers JA, Shetty R, Sommer M, Stevens M, Stolovitzky G, Takahashi M, Tang F, Teichmann S, Torres-Padilla ME, Tripathi L, Vemula P, Verdine G, Vollmer F, Wang J, Ying JY, Zhang F, Zhang T.
Voices of biotech.
Nat Biotechnol. 2016 34(3):270-5.
PubMed: 26963549 DOI: 10.1038/nbt.3502
386 Omenn GS, Lane L, Lundberg EK, Beavis RC, Overall CM, Deutsch EW.
Metrics for the Human Proteome Project 2016: Progress on Identifying and Characterizing the Human Proteome, Including Post-Translational Modifications.
J Proteome Res. 2016 Epub ahead of print
PubMed: 27487407 DOI: 10.1021/acs.jproteome.6b00511
385 Uhlen M, Bandrowski A, Carr S, Edwards A, Ellenberg J, Lundberg E, Rimm DL, Rodriguez H, Hiltke T, Snyder M, Yamamoto T.
A proposal for validation of antibodies.
Nat Methods. 2016 13(10):823-7.
PubMed: 27595404 DOI: 10.1038/nmeth.3995
384 Ayoglu B, Birgersson E, Mezger A, Nilsson M, Uhlén M, Nilsson P, Schwenk JM.
Multiplexed protein profiling by sequential affinity capture.
Proteomics. 2016 Epub ahead of print
PubMed: 26935855 DOI: 10.1002/pmic.201500398
383 Ayoglu B, Mitsios N, Kockum I, Khademi M, Zandian A, Sjöberg R, Forsström B, Bredenberg J, Lima Bomfim I, Holmgren E, Grönlund H, Guerreiro-Cacais AO, Abdelmagid N, Uhlén M, Waterboer T, Alfredsson L, Mulder J, Schwenk JM, Olsson T, Nilsson P.
Anoctamin 2 identified as an autoimmune target in multiple sclerosis.
Proc Natl Acad Sci U S A. 2016 113(8):2188-93.
PubMed: 26862169 DOI: 10.1073/pnas.1518553113
382 Fredolini C, Byström S, Pin E, Edfors F, Tamburro D, Iglesias MJ, Häggmark A, Hong MG, Uhlen M, Nilsson P, Schwenk JM.
Immunocapture strategies in translational proteomics.
Expert Rev Proteomics. 2016 13(1):83-98.
PubMed: 26558424 DOI: 10.1586/14789450.2016.1111141
381 Zhang MD, Barde S, Szodorai E, Josephson A, Mitsios N, Watanabe M, Attems J, Lubec G, Kovács GM, Uhlén M, Mulder J, Harkany T, Hökfelt T.
Comparative anatomical distribution of neuronal calcium-binding protein (NECAB) 1 and -2 in rodent and human spinal cord.
Brain Struct Funct. 2016 Epub ahead of print
PubMed: 26843217 DOI: 10.1007/s00429-016-1191-3
380 Liu F, Koval M, Ranganathan S, Fanayan S, Hancock WS, Lundberg EK, Beavis RC, Lane L, Duek P, McQuade L, Kelleher NL, Baker MS.
Systems Proteomics View of the Endogenous Human Claudin Protein Family.
J Proteome Res. 2016 15(2):339-59.
PubMed: 26680015 DOI: 10.1021/acs.jproteome.5b00769
379 Anfelt J, Kaczmarzyk D, Shabestary K, Renberg B, Rockberg J, Nielsen J, Uhlén M, Hudson EP.
Genetic and nutrient modulation of acetyl-CoA levels in Synechocystis for n-butanol production.
Microb Cell Fact. 2015 14():167.
PubMed: 26474754 DOI: 10.1186/s12934-015-0355-9
378 Gustafsson Sheppard N, Jarl L, Mahadessian D, Strittmatter L, Schmidt A, Madhusudan N, Tegnér J, Lundberg EK, Asplund A, Jain M, Nilsson R.
The folate-coupled enzyme MTHFD2 is a nuclear protein and promotes cell proliferation.
Sci Rep. 2015 5():15029.
PubMed: 26461067 DOI: 10.1038/srep15029
377 Lyu C, Mulder J, Barde S, Sahlholm K, Zeberg H, Nilsson J, Århem P, Hökfelt T, Fried K, Shi TJ.
G protein-gated inwardly rectifying potassium channel subunits 1 and 2 are down-regulated in rat dorsal root ganglion neurons and spinal cord after peripheral axotomy.
Mol Pain. 2015 11():44.
PubMed: 26199148 DOI: 10.1186/s12990-015-0044-z
376 Mardinoglu A, Nielsen J.
New paradigms for metabolic modeling of human cells.
Curr Opin Biotechnol. 2015 34():91-7.
PubMed: 25559199 DOI: 10.1016/j.copbio.2014.12.013
375 Zhang C, Ji B, Mardinoglu A, Nielsen J, Hua Q.
Logical transformation of genome-scale metabolic models for gene level applications and analysis.
Bioinformatics. 2015 31(14):2324-31.
PubMed: 25735769 DOI: 10.1093/bioinformatics/btv134
374 Mardinoglu A, Cregg PJ.
Modelling the effect of SPION size in a stent assisted magnetic drug targeting system with interparticle interactions.
ScientificWorldJournal. 2015 2015():618658.
PubMed: 25815370 DOI: 10.1155/2015/618658
373 Shoaie S, Ghaffari P, Kovatcheva-Datchary P, Mardinoglu A, Sen P, Pujos-Guillot E, de Wouters T, Juste C, Rizkalla S, Chilloux J, Hoyles L, Nicholson JK, , Dore J, Dumas ME, Clement K, Bäckhed F, Nielsen J.
Quantifying Diet-Induced Metabolic Changes of the Human Gut Microbiome.
Cell Metab. 2015 22(2):320-31.
PubMed: 26244934 DOI: 10.1016/j.cmet.2015.07.001
372 Mardinoglu A, Heiker JT, Gärtner D, Björnson E, Schön MR, Flehmig G, Klöting N, Krohn K, Fasshauer M, Stumvoll M, Nielsen J, Blüher M.
Extensive weight loss reveals distinct gene expression changes in human subcutaneous and visceral adipose tissue.
Sci Rep. 2015 5():14841.
PubMed: 26434764 DOI: 10.1038/srep14841
371 Mardinoglu A, Shoaie S, Bergentall M, Ghaffari P, Zhang C, Larsson E, Bäckhed F, Nielsen J.
The gut microbiota modulates host amino acid and glutathione metabolism in mice.
Mol Syst Biol. 2015 11(10):834.
PubMed: 26475342
370 Adiels M, Mardinoglu A, Taskinen MR, Borén J.
Kinetic Studies to Elucidate Impaired Metabolism of Triglyceride-rich Lipoproteins in Humans.
Front Physiol. 2015 6():342.
PubMed: 26635628 DOI: 10.3389/fphys.2015.00342
369 Ghaffari P, Mardinoglu A, Nielsen J.
Cancer Metabolism: A Modeling Perspective.
Front Physiol. 2015 6():382.
PubMed: 26733270 DOI: 10.3389/fphys.2015.00382
368 Ruiz-Riquelme A, Sánchez-Iglesias S, Rábano A, Guillén-Navarro E, Domingo-Jiménez R, Ramos A, Rosa I, Senra A, Nilsson P, García Á, Araújo-Vilar D, Requena JR.
Larger aggregates of mutant seipin in Celia's Encephalopathy, a new protein misfolding neurodegenerative disease.
Neurobiol Dis. 2015 83():44-53.
PubMed: 26282322 DOI: 10.1016/j.nbd.2015.08.006
367 Langenkamp E, Zhang L, Lugano R, Huang H, Elhassan TE, Georganaki M, Bazzar W, Lööf J, Trendelenburg G, Essand M, Pontén F, Smits A, Dimberg A.
Elevated expression of the C-type lectin CD93 in the glioblastoma vasculature regulates cytoskeletal rearrangements that enhance vessel function and reduce host survival.
Cancer Res. 2015 75(21):4504-16.
PubMed: 26363010 DOI: 10.1158/0008-5472.CAN-14-3636
366 Hansen HG, Nilsson CN, Lund AM, Kol S, Grav LM, Lundqvist M, Rockberg J, Lee GM, Andersen MR, Kildegaard HF.
Versatile microscale screening platform for improving recombinant protein productivity in Chinese hamster ovary cells.
Sci Rep. 2015 5():18016.
PubMed: 26657798 DOI: 10.1038/srep18016
365 Zhang L, Kundu S, Feenstra T, Li X, Jin C, Laaniste L, El Hassan TE, Ohlin KE, Yu D, Olofsson T, Olsson AK, Pontén F, Magnusson PU, Nilsson KF, Essand M, Smits A, Dieterich LC, Dimberg A.
Pleiotrophin promotes vascular abnormalization in gliomas and correlates with poor survival in patients with astrocytomas.
Sci Signal. 2015 8(406):ra125.
PubMed: 26645582 DOI: 10.1126/scisignal.aaa1690
364 Sjöberg R, Mattsson C, Andersson E, Hellström C, Uhlen M, Schwenk JM, Ayoglu B, Nilsson P.
Exploration of high-density protein microarrays for antibody validation and autoimmunity profiling.
N Biotechnol. 2015 Epub ahead of print
PubMed: 26417875 DOI: 10.1016/j.nbt.2015.09.002
363 Kanatani S, Honda T, Aramaki M, Hayashi K, Kubo K, Ishida M, Tanaka DH, Kawauchi T, Sekine K, Kusuzawa S, Kawasaki T, Hirata T, Tabata H, Uhlén P, Nakajima K.
The COUP-TFII/Neuropilin-2 is a molecular switch steering diencephalon-derived GABAergic neurons in the developing mouse brain.
Proc Natl Acad Sci U S A. 2015 112(36):E4985-94.
PubMed: 26305926 DOI: 10.1073/pnas.1420701112
362 Adori C, Barde S, Vas S, Ebner K, Su J, Svensson C, Mathé AA, Singewald N, Reinscheid RR, Uhlén M, Kultima K, Bagdy G, Hökfelt T.
Exploring the role of neuropeptide S in the regulation of arousal: a functional anatomical study.
Brain Struct Funct. 2015 Epub ahead of print
PubMed: 26462664 DOI: 10.1007/s00429-015-1117-5
361 Zieba A, Sjöstedt E, Olovsson M, Fagerberg L, Hallström BM, Oskarsson L, Edlund K, Tolf A, Uhlen M, Ponten F.
The Human Endometrium-Specific Proteome Defined by Transcriptomics and Antibody-Based Profiling.
OMICS. 2015 19(11):659-68.
PubMed: 26488136 DOI: 10.1089/omi.2015.0115
360 Dijksterhuis JP, Arthofer E, Marinescu VD, Nelander S, Uhlén M, Pontén F, Mulder J, Schulte G.
High levels of WNT-5A in human glioma correlate with increased presence of tumor-associated microglia/monocytes.
Exp Cell Res. 2015 339(2):280-8.
PubMed: 26511503 DOI: 10.1016/j.yexcr.2015.10.022
359 Björnson E, Mukhopadhyay B, Asplund A, Pristovsek N, Cinar R, Romeo S, Uhlen M, Kunos G, Nielsen J, Mardinoglu A.
Stratification of Hepatocellular Carcinoma Patients Based on Acetate Utilization.
Cell Rep. 2015 13(9):2014-26.
PubMed: 26655911 DOI: 10.1016/j.celrep.2015.10.045
358 Habuka M, Fagerberg L, Hallström BM, Pontén F, Yamamoto T, Uhlen M.
The Urinary Bladder Transcriptome and Proteome Defined by Transcriptomics and Antibody-Based Profiling.
PLoS One. 2015 10(12):e0145301.
PubMed: 26694548 DOI: 10.1371/journal.pone.0145301
357 Ko BK, Lee SY, Lee YH, Hwang IS, Persson H, Rockberg J, Borrebaeck C, Park D, Kim KT, Uhlen M, Lee JS.
Combination of novel HER2-targeting antibody 1E11 with trastuzumab shows synergistic antitumor activity in HER2-positive gastric cancer.
Mol Oncol. 2015 9(2):398-408.
PubMed: 25306393 DOI: 10.1016/j.molonc.2014.09.007
356 Pronk JT, Lee SY, Lievense J, Pierce J, Palsson B, Uhlen M, Nielsen J.
How to set up collaborations between academia and industrial biotech companies.
Nat Biotechnol. 2015 33(3):237-40.
PubMed: 25748909 DOI: 10.1038/nbt.3171
355 Perisic L, Rodriguez PQ, Hultenby K, Sun Y, Lal M, Betsholtz C, Uhlén M, Wernerson A, Hedin U, Pikkarainen T, Tryggvason K, Patrakka J.
Schip1 is a novel podocyte foot process protein that mediates actin cytoskeleton rearrangements and forms a complex with Nherf2 and ezrin.
PLoS One. 2015 10(3):e0122067.
PubMed: 25807495 DOI: 10.1371/journal.pone.0122067
354 Lundqvist M, Edfors F, Sivertsson Å, Hallström BM, Hudson EP, Tegel H, Holmberg A, Uhlén M, Rockberg J.
Solid-phase cloning for high-throughput assembly of single and multiple DNA parts.
Nucleic Acids Res. 2015 43(7):e49.
PubMed: 25618848 DOI: 10.1093/nar/gkv036
353 Forsström B, Axnäs BB, Rockberg J, Danielsson H, Bohlin A, Uhlen M.
Dissecting antibodies with regards to linear and conformational epitopes.
PLoS One. 2015 10(3):e0121673.
PubMed: 25816293 DOI: 10.1371/journal.pone.0121673
352 Väremo L, Scheele C, Broholm C, Mardinoglu A, Kampf C, Asplund A, Nookaew I, Uhlén M, Pedersen BK, Nielsen J.
Proteome- and transcriptome-driven reconstruction of the human myocyte metabolic network and its use for identification of markers for diabetes.
Cell Rep. 2015 11(6):921-33.
PubMed: 25937284 DOI: 10.1016/j.celrep.2015.04.010
351 Kürten C, Uhlén M, Syrén PO.
Overexpression of functional human oxidosqualene cyclase in Escherichia coli.
Protein Expr Purif. 2015 115():46-53.
PubMed: 25962741 DOI: 10.1016/j.pep.2015.04.015
350 Huang M, Bai Y, Sjostrom SL, Hallström BM, Liu Z, Petranovic D, Uhlén M, Joensson HN, Andersson-Svahn H, Nielsen J.
Microfluidic screening and whole-genome sequencing identifies mutations associated with improved protein secretion by yeast.
Proc Natl Acad Sci U S A. 2015 112(34):E4689-96.
PubMed: 26261321 DOI: 10.1073/pnas.1506460112
349 Adori C, Barde S, Bogdanovic N, Uhlén M, Reinscheid RR, Kovacs GG, Hökfelt T.
Neuropeptide S- and Neuropeptide S receptor-expressing neuron populations in the human pons.
Front Neuroanat. 2015 9():126.
PubMed: 26441556 DOI: 10.3389/fnana.2015.00126
348 Romanov RA, Alpár A, Zhang MD, Zeisel A, Calas A, Landry M, Fuszard M, Shirran SL, Schnell R, Dobolyi Á, Oláh M, Spence L, Mulder J, Martens H, Palkovits M, Uhlen M, Sitte HH, Botting CH, Wagner L, Linnarsson S, Hökfelt T, Harkany T.
A secretagogin locus of the mammalian hypothalamus controls stress hormone release.
EMBO J. 2015 34(1):36-54.
PubMed: 25430741 DOI: 10.15252/embj.201488977
347 Ádori C, Glück L, Barde S, Yoshitake T, Kovacs GG, Mulder J, Maglóczky Z, Havas L, Bölcskei K, Mitsios N, Uhlén M, Szolcsányi J, Kehr J, Rönnbäck A, Schwartz T, Rehfeld JF, Harkany T, Palkovits M, Schulz S, Hökfelt T.
Critical role of somatostatin receptor 2 in the vulnerability of the central noradrenergic system: new aspects on Alzheimer's disease.
Acta Neuropathol. 2015 129(4):541-63.
PubMed: 25676386 DOI: 10.1007/s00401-015-1394-3
346 Qundos U, Drobin K, Mattsson C, Hong MG, Sjöberg R, Forsström B, Solomon D, Uhlén M, Nilsson P, Michaëlsson K, Schwenk JM.
Affinity proteomics discovers decreased levels of AMFR in plasma from Osteoporosis patients.
Proteomics Clin Appl. 2015 Epub ahead of print
PubMed: 25689831 DOI: 10.1002/prca.201400167
345 Arner P, Henjes F, Schwenk JM, Darmanis S, Dahlman I, Iresjö BM, Naredi P, Agustsson T, Lundholm K, Nilsson P, Rydén M.
Circulating carnosine dipeptidase 1 associates with weight loss and poor prognosis in gastrointestinal cancer.
PLoS One. 2015 10(4):e0123566.
PubMed: 25898255 DOI: 10.1371/journal.pone.0123566
344 Hamsten C, Skattum L, Truedsson L, von Döbeln U, Uhlén M, Schwenk JM, Hammarström L, Nilsson P, Neiman M.
Heat differentiated complement factor profiling.
J Proteomics. 2015 126():155-62.
PubMed: 26047714 DOI: 10.1016/j.jprot.2015.05.027
343 Häggmark A, Schwenk JM, Nilsson P.
Neuroproteomic profiling of human body fluids.
Proteomics Clin Appl. 2015 Epub ahead of print
PubMed: 26286680 DOI: 10.1002/prca.201500065
342 O'Hurley G, Busch C, Fagerberg L, Hallström BM, Stadler C, Tolf A, Lundberg E, Schwenk JM, Jirström K, Bjartell A, Gallagher WM, Uhlén M, Pontén F.
Analysis of the Human Prostate-Specific Proteome Defined by Transcriptomics and Antibody-Based Profiling Identifies TMEM79 and ACOXL as Two Putative, Diagnostic Markers in Prostate Cancer.
PLoS One. 2015 10(8):e0133449.
PubMed: 26237329 DOI: 10.1371/journal.pone.0133449
341 Horvatovich P, Lundberg EK, Chen YJ, Sung TY, He F, Nice EC, Goode RJ, Yu S, Ranganathan S, Baker MS, Domont GB, Velasquez E, Li D, Liu S, Wang Q, He QY, Menon R, Guan Y, Corrales FJ, Segura V, Casal JI, Pascual-Montano A, Albar JP, Fuentes M, Gonzalez-Gonzalez M, Diez P, Ibarrola N, Degano RM, Mohammed Y, Borchers CH, Urbani A, Soggiu A, Yamamoto T, Salekdeh GH, Archakov A, Ponomarenko E, Lisitsa A, Lichti CF, Mostovenko E, Kroes RA, Rezeli M, Végvári Á, Fehniger TE, Bischoff R, Vizcaíno JA, Deutsch EW, Lane L, Nilsson CL, Marko-Varga G, Omenn GS, Jeong SK, Lim JS, Paik YK, Hancock WS.
Quest for Missing Proteins: Update 2015 on Chromosome-Centric Human Proteome Project.
J Proteome Res. 2015 Epub ahead of print
PubMed: 26076068 DOI: 10.1021/pr5013009
340 Omenn GS, Lane L, Lundberg EK, Beavis RC, Nesvizhskii AI, Deutsch EW.
Metrics for the Human Proteome Project 2015: Progress on the Human Proteome and Guidelines for High-Confidence Protein Identification.
J Proteome Res. 2015 Epub ahead of print
PubMed: 26155816 DOI: 10.1021/acs.jproteome.5b00499
339 Roy A, Coum A, Marinescu VD, Põlajeva J, Smits A, Nelander S, Uhrbom L, Westermark B, Forsberg-Nilsson K, Pontén F, Tchougounova E.
Glioma-derived plasminogen activator inhibitor-1 (PAI-1) regulates the recruitment of LRP1 positive mast cells.
Oncotarget. 2015 Epub ahead of print
PubMed: 26164207
338 Lindskog C, Linné J, Fagerberg L, Hallström BM, Sundberg CJ, Lindholm M, Huss M, Kampf C, Choi H, Liem DA, Ping P, Väremo L, Mardinoglu A, Nielsen J, Larsson E, Pontén F, Uhlén M.
The human cardiac and skeletal muscle proteomes defined by transcriptomics and antibody-based profiling.
BMC Genomics. 2015 16():475.
PubMed: 26109061 DOI: 10.1186/s12864-015-1686-y
337 Yu NY, Hallström BM, Fagerberg L, Ponten F, Kawaji H, Carninci P, Forrest AR, Fantom Consortium T, Hayashizaki Y, Uhlén M, Daub CO.
Complementing tissue characterization by integrating transcriptome profiling from the Human Protein Atlas and from the FANTOM5 consortium.
Nucleic Acids Res. 2015 43(14):6787-98.
PubMed: 26117540 DOI: 10.1093/nar/gkv608
336 Reyahi A, Nik AM, Ghiami M, Gritli-Linde A, Pontén F, Johansson BR, Carlsson P.
Foxf2 Is Required for Brain Pericyte Differentiation and Development and Maintenance of the Blood-Brain Barrier.
Dev Cell. 2015 34(1):19-32.
PubMed: 26120030 DOI: 10.1016/j.devcel.2015.05.008
335 Sorbye H, Dragomir A, Sundström M, Pfeiffer P, Thunberg U, Bergfors M, Aasebø K, Eide GE, Ponten F, Qvortrup C, Glimelius B.
High BRAF Mutation Frequency and Marked Survival Differences in Subgroups According to KRAS/BRAF Mutation Status and Tumor Tissue Availability in a Prospective Population-Based Metastatic Colorectal Cancer Cohort.
PLoS One. 2015 10(6):e0131046.
PubMed: 26121270 DOI: 10.1371/journal.pone.0131046
334 Sjöstedt E, Fagerberg L, Hallström BM, Häggmark A, Mitsios N, Nilsson P, Pontén F, Hökfelt T, Uhlén M, Mulder J.
Defining the Human Brain Proteome Using Transcriptomics and Antibody-Based Profiling with a Focus on the Cerebral Cortex.
PLoS One. 2015 10(6):e0130028.
PubMed: 26076492 DOI: 10.1371/journal.pone.0130028
333 Vizoso M, Ferreira HJ, Lopez-Serra P, Carmona FJ, Martínez-Cardús A, Girotti MR, Villanueva A, Guil S, Moutinho C, Liz J, Portela A, Heyn H, Moran S, Vidal A, Martinez-Iniesta M, Manzano JL, Fernandez-Figueras MT, Elez E, Muñoz-Couselo E, Botella-Estrada R, Berrocal A, Pontén F, Oord Jv, Gallagher WM, Frederick DT, Flaherty KT, McDermott U, Lorigan P, Marais R, Esteller M.
Epigenetic activation of a cryptic TBC1D16 transcript enhances melanoma progression by targeting EGFR.
Nat Med. 2015 21(7):741-50.
PubMed: 26030178 DOI: 10.1038/nm.3863
332 Kiflemariam S, Ljungström V, Pontén F, Sjöblom T.
Tumor vessel up-regulation of INSR revealed by single-cell expression analysis of the tyrosine kinome and phosphatome in human cancers.
Am J Pathol. 2015 185(6):1600-9.
PubMed: 25864925 DOI: 10.1016/j.ajpath.2015.02.019
331 Ghaffari P, Mardinoglu A, Asplund A, Shoaie S, Kampf C, Uhlen M, Nielsen J.
Identifying anti-growth factors for human cancer cell lines through genome-scale metabolic modeling.
Sci Rep. 2015 5():8183.
PubMed: 25640694 DOI: 10.1038/srep08183
330 Lindskog C.
The potential clinical impact of the tissue-based map of the human proteome.
Expert Rev Proteomics. 2015 12(3):213-5.
PubMed: 25925092 DOI: 10.1586/14789450.2015.1040771
329 Mattsson JS, Bergman B, Grinberg M, Edlund K, Marincevic M, Jirström K, Pontén F, Hengstler JG, Rahnenführer J, Karlsson MG, Karlsson C, Helenius G, Botling J, Micke P, Gulyas M.
Prognostic impact of COX-2 in non-small cell lung cancer: a comprehensive compartment-specific evaluation of tumor and stromal cell expression.
Cancer Lett. 2015 356(2 Pt B):837-45.
PubMed: 25449785 DOI: 10.1016/j.canlet.2014.10.032
328 Edqvist PH, Fagerberg L, Hallström BM, Danielsson A, Edlund K, Uhlén M, Pontén F.
Expression of human skin-specific genes defined by transcriptomics and antibody-based profiling.
J Histochem Cytochem. 2015 63(2):129-41.
PubMed: 25411189 DOI: 10.1369/0022155414562646
327 Lindskog C, Edlund K, Mattsson JS, Micke P.
Immunohistochemistry-based prognostic biomarkers in NSCLC: novel findings on the road to clinical use?
Expert Rev Mol Diagn. 2015 15(4):471-90.
PubMed: 25599124 DOI: 10.1586/14737159.2015.1002772
326 Häggmark A, Hamsten C, Wiklundh E, Lindskog C, Mattsson C, Andersson E, Lundberg IE, Grönlund H, Schwenk JM, Eklund A, Grunewald J, Nilsson P.
Proteomic profiling reveals autoimmune targets in sarcoidosis.
Am J Respir Crit Care Med. 2015 191(5):574-83.
PubMed: 25608002 DOI: 10.1164/rccm.201407-1341OC
325 Edqvist PH, Huvila J, Forsström B, Talve L, Carpén O, Salvesen HB, Krakstad C, Grénman S, Johannesson H, Ljungqvist O, Uhlén M, Pontén F, Auranen A.
Loss of ASRGL1 expression is an independent biomarker for disease-specific survival in endometrioid endometrial carcinoma.
Gynecol Oncol. 2015 Epub ahead of print
PubMed: 25858696 DOI: 10.1016/j.ygyno.2015.03.055
324 Uhlén M, Fagerberg L, Hallström BM, Lindskog C, Oksvold P, Mardinoglu A, Sivertsson Å, Kampf C, Sjöstedt E, Asplund A, Olsson I, Edlund K, Lundberg E, Navani S, Szigyarto CA, Odeberg J, Djureinovic D, Takanen JO, Hober S, Alm T, Edqvist PH, Berling H, Tegel H, Mulder J, Rockberg J, Nilsson P, Schwenk JM, Hamsten M, von Feilitzen K, Forsberg M, Persson L, Johansson F, Zwahlen M, von Heijne G, Nielsen J, Pontén F.
Tissue-based map of the human proteome.
Science 2015 347(6220):1260419.
PubMed: 25613900 DOI: 10.1126/science.1260419
323 Fristedt R, Elebro J, Gaber A, Jonsson L, Heby M, Yudina Y, Nodin B, Uhlén M, Eberhard J, Jirström K.
Reduced expression of the polymeric immunoglobulin receptor in pancreatic and periampullary adenocarcinoma signifies tumour progression and poor prognosis.
PLoS One. 2014 9(11):e112728.
PubMed: 25397670 DOI: 10.1371/journal.pone.0112728
322 Lane L, Bairoch A, Beavis RC, Deutsch EW, Gaudet P, Lundberg E, Omenn GS.
Metrics for the Human Proteome Project 2013-2014 and strategies for finding missing proteins.
J Proteome Res. 2014 13(1):15-20.
PubMed: 24364385 DOI: 10.1021/pr401144x
321 Häggmark A, Mikus M, Mohsenchian A, Hong MG, Forsström B, Gajewska B, Barańczyk-Kuźma A, Uhlén M, Schwenk JM, Kuźma-Kozakiewicz M, Nilsson P.
Plasma profiling reveals three proteins associated to amyotrophic lateral sclerosis.
Ann Clin Transl Neurol. 2014 1(8):544-53.
PubMed: 25356426 DOI: 10.1002/acn3.83
320 Grinberg M, Stöber RM, Edlund K, Rempel E, Godoy P, Reif R, Widera A, Madjar K, Schmidt-Heck W, Marchan R, Sachinidis A, Spitkovsky D, Hescheler J, Carmo H, Arbo MD, van de Water B, Wink S, Vinken M, Rogiers V, Escher S, Hardy B, Mitic D, Myatt G, Waldmann T, Mardinoglu A, Damm G, Seehofer D, Nüssler A, Weiss TS, Oberemm A, Lampen A, Schaap MM, Luijten M, van Steeg H, Thasler WE, Kleinjans JC, Stierum RH, Leist M, Rahnenführer J, Hengstler JG.
Toxicogenomics directory of chemically exposed human hepatocytes.
Arch Toxicol. 2014 88(12):2261-87.
PubMed: 25399406 DOI: 10.1007/s00204-014-1400-x
319 Andersson S, Nilsson K, Fagerberg L, Hallström BM, Sundström C, Danielsson A, Edlund K, Uhlen M, Asplund A.
The transcriptomic and proteomic landscapes of bone marrow and secondary lymphoid tissues.
PLoS One. 2014 9(12):e115911.
PubMed: 25541736 DOI: 10.1371/journal.pone.0115911
318 Pinnick KE, Nicholson G, Manolopoulos KN, McQuaid SE, Valet P, Frayn KN, Denton N, Min JL, Zondervan KT, Fleckner J, , McCarthy MI, Holmes CC, Karpe F.
Distinct developmental profile of lower-body adipose tissue defines resistance against obesity-associated metabolic complications.
Diabetes. 2014 63(11):3785-97.
PubMed: 24947352 DOI: 10.2337/db14-0385
317 Habuka M, Fagerberg L, Hallström BM, Kampf C, Edlund K, Sivertsson Å, Yamamoto T, Pontén F, Uhlén M, Odeberg J.
The kidney transcriptome and proteome defined by transcriptomics and antibody-based profiling.
PLoS One. 2014 9(12):e116125.
PubMed: 25551756 DOI: 10.1371/journal.pone.0116125
316 Danielsson A, Pontén F, Fagerberg L, Hallström BM, Schwenk JM, Uhlén M, Korsgren O, Lindskog C.
The human pancreas proteome defined by transcriptomics and antibody-based profiling.
PLoS One. 2014 9(12):e115421.
PubMed: 25546435 DOI: 10.1371/journal.pone.0115421
315 Elfineh L, Classon C, Asplund A, Pettersson U, Kamali-Moghaddam M, Lind SB.
Tyrosine phosphorylation profiling via in situ proximity ligation assay.
BMC Cancer. 2014 14():435.
PubMed: 24928687 DOI: 10.1186/1471-2407-14-435
314 Hu FJ, Uhlen M, Rockberg J.
Generation of HER2 monoclonal antibodies using epitopes of a rabbit polyclonal antibody.
N Biotechnol. 2014 31(1):35-43.
PubMed: 24120493 DOI: 10.1016/j.nbt.2013.10.002
313 Berntsson J, Lundgren S, Nodin B, Uhlén M, Gaber A, Jirström K.
Expression and prognostic significance of the polymeric immunoglobulin receptor in epithelial ovarian cancer.
J Ovarian Res. 2014 7(1):26.
PubMed: 24568264 DOI: 10.1186/1757-2215-7-26
312 Alm T, von Feilitzen K, Lundberg E, Sivertsson Å, Uhlén M.
A chromosome-centric analysis of antibodies directed toward the human proteome using Antibodypedia.
J Proteome Res. 2014 13(3):1669-76.
PubMed: 24533432 DOI: 10.1021/pr4011525
311 Zhang MD, Tortoriello G, Hsueh B, Tomer R, Ye L, Mitsios N, Borgius L, Grant G, Kiehn O, Watanabe M, Uhlén M, Mulder J, Deisseroth K, Harkany T, Hökfelt TG.
Neuronal calcium-binding proteins 1/2 localize to dorsal root ganglia and excitatory spinal neurons and are regulated by nerve injury.
Proc Natl Acad Sci U S A. 2014 111(12):E1149-58.
PubMed: 24616509 DOI: 10.1073/pnas.1402318111
310 Stadler C, Fagerberg L, Sivertsson Å, Oksvold P, Zwahlen M, Hallström BM, Lundberg E, Uhlén M.
RNA- and antibody-based profiling of the human proteome with focus on chromosome 19.
J Proteome Res. 2014 13(4):2019-27.
PubMed: 24579871 DOI: 10.1021/pr401156g
309 Bengtsson E, Nerjovaj P, Wangefjord S, Nodin B, Eberhard J, Uhlén M, Borgquist S, Jirström K.
HMG-CoA reductase expression in primary colorectal cancer correlates with favourable clinicopathological characteristics and an improved clinical outcome.
Diagn Pathol. 2014 9():78.
PubMed: 24708688 DOI: 10.1186/1746-1596-9-78
308 Fristedt R, Gaber A, Hedner C, Nodin B, Uhlén M, Eberhard J, Jirström K.
Expression and prognostic significance of the polymeric immunoglobulin receptor in esophageal and gastric adenocarcinoma.
J Transl Med. 2014 12():83.
PubMed: 24694107 DOI: 10.1186/1479-5876-12-83
307 Andersson G, Wennersten C, Gaber A, Boman K, Nodin B, Uhlén M, Segersten U, Malmström PU, Jirström K.
Reduced expression of ezrin in urothelial bladder cancer signifies more advanced tumours and an impaired survival: validatory study of two independent patient cohorts.
BMC Urol. 2014 14():36.
PubMed: 24885195 DOI: 10.1186/1471-2490-14-36
306 Liu Z, Liu L, Österlund T, Hou J, Huang M, Fagerberg L, Petranovic D, Uhlén M, Nielsen J.
Improved production of a heterologous amylase in Saccharomyces cerevisiae by inverse metabolic engineering.
Appl Environ Microbiol. 2014 80(17):5542-50.
PubMed: 24973076 DOI: 10.1128/AEM.00712-14
305 Jonsson L, Hedner C, Gaber A, Korkocic D, Nodin B, Uhlén M, Eberhard J, Jirström K.
High expression of RNA-binding motif protein 3 in esophageal and gastric adenocarcinoma correlates with intestinal metaplasia-associated tumours and independently predicts a reduced risk of recurrence and death.
Biomark Res. 2014 2():11.
PubMed: 24963396 DOI: 10.1186/2050-7771-2-11
304 Byström S, Ayoglu B, Häggmark A, Mitsios N, Hong MG, Drobin K, Forsström B, Fredolini C, Khademi M, Amor S, Uhlén M, Olsson T, Mulder J, Nilsson P, Schwenk JM.
Affinity Proteomic Profiling of Plasma, Cerebrospinal Fluid, and Brain Tissue within Multiple Sclerosis.
J Proteome Res. 2014 Epub ahead of print
PubMed: 25231264 DOI: 10.1021/pr500609e
303 Kampf C, Mardinoglu A, Fagerberg L, Hallström BM, Danielsson A, Nielsen J, Pontén F, Uhlen M.
Defining the human gallbladder proteome by transcriptomics and affinity proteomics.
Proteomics. 2014 Epub ahead of print
PubMed: 25175928 DOI: 10.1002/pmic.201400201
302 Mardinoglu A, Kampf C, Asplund A, Fagerberg L, Hallström BM, Edlund K, Blüher M, Pontén F, Uhlen M, Nielsen J.
Defining the Human Adipose Tissue Proteome To Reveal Metabolic Alterations in Obesity.
J Proteome Res. 2014 Epub ahead of print
PubMed: 25219818 DOI: 10.1021/pr500586e
301 Libard S, Popova SN, Amini RM, Kärjä V, Pietiläinen T, Hämäläinen KM, Sundström C, Hesselager G, Bergqvist M, Ekman S, Zetterling M, Smits A, Nilsson P, Pfeifer S, de Ståhl TD, Enblad G, Ponten F, Alafuzoff I.
Human Cytomegalovirus Tegument Protein pp65 Is Detected in All Intra- and Extra-Axial Brain Tumours Independent of the Tumour Type or Grade.
PLoS One. 2014 9(9):e108861.
PubMed: 25268364 DOI: 10.1371/journal.pone.0108861
300 Gardberg M, Heuser VD, Iljin K, Kampf C, Uhlen M, Carpén O.
Characterization of Leukocyte Formin FMNL1 Expression in Human Tissues.
J Histochem Cytochem. 2014 62(6):460-470.
PubMed: 24700756 DOI: 10.1369/0022155414532293
299 Sooman L, Freyhult E, Jaiswal A, Navani S, Edqvist PH, Pontén F, Tchougounova E, Smits A, Elsir T, Gullbo J, Lennartsson J, Bergqvist M, Ekman S.
FGF2 as a potential prognostic biomarker for proneural glioma patients.
Acta Oncol. 2014 ():1-10.
PubMed: 25263081 DOI: 10.3109/0284186X.2014.951492
298 Lindskog C, Fagerberg L, Hallström B, Edlund K, Hellwig B, Rahnenführer J, Kampf C, Uhlén M, Pontén F, Micke P.
The lung-specific proteome defined by integration of transcriptomics and antibody-based profiling.
FASEB J. 2014 Epub ahead of print
PubMed: 25169055 DOI: 10.1096/fj.14-254862
297 Gremel G, Liew M, Hamzei F, Hardell E, Selling J, Ghaderi M, Stemme S, Pontén F, Carlson JW.
A prognosis based classification of undifferentiated uterine sarcomas: Identification of mitotic index, hormone receptors and YWHAE-FAM22 translocation status as predictors of survival.
Int J Cancer. 2014 Epub ahead of print
PubMed: 25130488 DOI: 10.1002/ijc.29141
296 Hemdan T, Lindén M, B Lind S, V Namuduri A, Sjöstedt E, D de Ståhl T, Asplund A, Malmström PU, Segersten U.
The prognostic value and therapeutic target role of stathmin-1 in urinary bladder cancer.
Br J Cancer. 2014 111(6):1180-7.
PubMed: 25072257 DOI: 10.1038/bjc.2014.427
295 O Leary PC, Terrile M, Bajor M, Gaj P, Hennessy BT, Mills GB, Zagozdzon A, O Connor DP, Brennan DJ, Connor K, Li J, Gonzalez-Angulo AM, Sun HD, Pu JX, Pontén F, Uhlén M, Jirström K, Nowis DA, Crown JP, Zagozdzon R, Gallagher WM.
Peroxiredoxin-1 protects estrogen receptor alpha from oxidative stress-induced suppression and is a protein biomarker of favorable prognosis in breast cancer.
Breast Cancer Res. 2014 16(4):R79.
PubMed: 25011585 DOI: 10.1186/bcr3691
294 Ayoglu B, Chaouch A, Lochmüller H, Politano L, Bertini E, Spitali P, Hiller M, Niks EH, Gualandi F, Pontén F, Bushby K, Aartsma-Rus A, Schwartz E, Le Priol Y, Straub V, Uhlén M, Cirak S, 't Hoen PA, Muntoni F, Ferlini A, Schwenk JM, Nilsson P, Al-Khalili Szigyarto C.
Affinity proteomics within rare diseases: a BIO-NMD study for blood biomarkers of muscular dystrophies.
EMBO Mol Med. 2014 6(7):918-36.
PubMed: 24920607 DOI: 10.15252/emmm.201303724
293 Lindskog C, Kuhlwilm M, Davierwala A, Fu N, Hegde G, Uhlén M, Navani S, Pääbo S, Pontén F.
Analysis of candidate genes for lineage-specific expression changes in humans and primates.
J Proteome Res. 2014 13(8):3596-606.
PubMed: 24911366 DOI: 10.1021/pr500045f
292 Gremel G, Wanders A, Cedernaes J, Fagerberg L, Hallström B, Edlund K, Sjöstedt E, Uhlén M, Pontén F.
The human gastrointestinal tract-specific transcriptome and proteome as defined by RNA sequencing and antibody-based profiling.
J Gastroenterol. 2014 Epub ahead of print
PubMed: 24789573 DOI: 10.1007/s00535-014-0958-7
291 O'Hurley G, Sjöstedt E, Rahman A, Li B, Kampf C, Pontén F, Gallagher WM, Lindskog C.
Garbage in, garbage out: a critical evaluation of strategies used for validation of immunohistochemical biomarkers.
Mol Oncol. 2014 8(4):783-98.
PubMed: 24725481 DOI: 10.1016/j.molonc.2014.03.008
290 Dragomir A, de Wit M, Johansson C, Uhlen M, Pontén F.
The role of SATB2 as a diagnostic marker for tumors of colorectal origin: Results of a pathology-based clinical prospective study.
Am J Clin Pathol. 2014 141(5):630-8.
PubMed: 24713733 DOI: 10.1309/AJCPWW2URZ9JKQJU
289 Micke P, Mattsson JS, Edlund K, Lohr M, Jirström K, Berglund A, Botling J, Rahnenfuehrer J, Marincevic M, Pontén F, Ekman S, Hengstler J, Wöll S, Sahin U, Türeci O.
Aberrantly activated claudin 6 and 18.2 as potential therapy targets in non-small-cell lung cancer.
Int J Cancer. 2014 135(9):2206-14.
PubMed: 24710653 DOI: 10.1002/ijc.28857
288 Kampf C, Mardinoglu A, Fagerberg L, Hallström BM, Edlund K, Lundberg E, Pontén F, Nielsen J, Uhlen M.
The human liver-specific proteome defined by transcriptomics and antibody-based profiling.
FASEB J. 2014 28(7):2901-14.
PubMed: 24648543 DOI: 10.1096/fj.14-250555
287 Agren R, Mardinoglu A, Asplund A, Kampf C, Uhlen M, Nielsen J.
Identification of anticancer drugs for hepatocellular carcinoma through personalized genome-scale metabolic modeling.
Mol Syst Biol. 2014 10():721.
PubMed: 24646661
286 Liem DA, Nsair A, Setty SP, Cadeiras M, Wang D, Maclellan R, Lotz C, Lin AJ, Tabaraki J, Li H, Ge J, Odeberg J, Ponten F, Larson E, Mulder J, Lundberg E, Weiss JN, Uhlen M, Ping P, Deng MC.
Molecular- and organelle-based predictive paradigm underlying recovery by left ventricular assist device support.
Circ Heart Fail. 2014 7(2):359-66.
PubMed: 24643888 DOI: 10.1161/CIRCHEARTFAILURE.113.000250
285 Bozoky B, Savchenko A, Guven H, Ponten F, Klein G, Szekely L.
Decreased decorin expression in the tumor microenvironment.
Cancer Med. 2014 3(3):485-91.
PubMed: 24634138 DOI: 10.1002/cam4.231
284 Djureinovic D, Fagerberg L, Hallström B, Danielsson A, Lindskog C, Uhlén M, Pontén F.
The human testis-specific proteome defined by transcriptomics and antibody-based profiling.
Mol Hum Reprod. 2014 20(6):476-88.
PubMed: 24598113 DOI: 10.1093/molehr/gau018
283 Howat WJ, Lewis A, Jones P, Kampf C, Pontén F, van der Loos CM, Gray N, Womack C, Warford A.
Antibody validation of immunohistochemistry for biomarker discovery: Recommendations of a consortium of academic and pharmaceutical based histopathology researchers.
Methods. 2014 Epub ahead of print
PubMed: 24525140 DOI: 10.1016/j.ymeth.2014.01.018
282 Sooman L, Ekman S, Tsakonas G, Jaiswal A, Navani S, Edqvist PH, Pontén F, Bergström S, Johansson M, Wu X, Blomquist E, Bergqvist M, Gullbo J, Lennartsson J.
PTPN6 expression is epigenetically regulated and influences survival and response to chemotherapy in high-grade gliomas.
Tumour Biol. 2014 35(5):4479-88.
PubMed: 24510345 DOI: 10.1007/s13277-013-1590-5
281 Nilsson R, Jain M, Madhusudhan N, Sheppard NG, Strittmatter L, Kampf C, Huang J, Asplund A, Mootha VK.
Metabolic enzyme expression highlights a key role for MTHFD2 and the mitochondrial folate pathway in cancer.
Nat Commun. 2014 5():3128.
PubMed: 24451681 DOI: 10.1038/ncomms4128
280 Hansson J, Hultenby K, Cramnert C, Pontén F, Jansson H, Lindgren D, Axelson H, Johansson ME.
Evidence for a morphologically distinct and functionally robust cell type in the proximal tubules of human kidney.
Hum Pathol. 2014 45(2):382-93.
PubMed: 24439225 DOI: 10.1016/j.humpath.2013.10.003
279 Mardinoglu A, Agren R, Kampf C, Asplund A, Uhlen M, Nielsen J.
Genome-scale metabolic modelling of hepatocytes reveals serine deficiency in patients with non-alcoholic fatty liver disease.
Nat Commun. 2014 5():3083.
PubMed: 24419221 DOI: 10.1038/ncomms4083
278 de Wit M, Kant H, Piersma SR, Pham TV, Mongera S, van Berkel MP, Boven E, Pontén F, Meijer GA, Jimenez CR, Fijneman RJ.
Colorectal cancer candidate biomarkers identified by tissue secretome proteome profiling.
J Proteomics. 2014 99():26-39.
PubMed: 24418523 DOI: 10.1016/j.jprot.2014.01.001
277 Hansson SF, Korsgren S, Pontén F, Korsgren O.
Detection of enterovirus in the islet cells of patients with type 1 diabetes: what do we learn from immunohistochemistry?
Diabetologia. 2014 57(3):645-6.
PubMed: 24352376 DOI: 10.1007/s00125-013-3138-z
276 Gremel G, Bergman J, Djureinovic D, Edqvist PH, Maindad V, Bharambe BM, Khan WA, Navani S, Elebro J, Jirström K, Hellberg D, Uhlén M, Micke P, Pontén F.
A systematic analysis of commonly used antibodies in cancer diagnostics.
Histopathology. 2014 64(2):293-305.
PubMed: 24330150 DOI: 10.1111/his.12255
275 Fagerberg L, Hallström BM, Oksvold P, Kampf C, Djureinovic D, Odeberg J, Habuka M, Tahmasebpoor S, Danielsson A, Edlund K, Asplund A, Sjöstedt E, Lundberg E, Szigyarto CA, Skogs M, Takanen JO, Berling H, Tegel H, Mulder J, Nilsson P, Schwenk JM, Lindskog C, Danielsson F, Mardinoglu A, Sivertsson A, von Feilitzen K, Forsberg M, Zwahlen M, Olsson I, Navani S, Huss M, Nielsen J, Ponten F, Uhlén M.
Analysis of the human tissue-specific expression by genome-wide integration of transcriptomics and antibody-based proteomics.
Mol Cell Proteomics. 2014 13(2):397-406.
PubMed: 24309898 DOI: 10.1074/mcp.M113.035600
274 Sherwood V, Chaurasiya SK, Ekström EJ, Guilmain W, Liu Q, Koeck T, Brown K, Hansson K, Agnarsdóttir M, Bergqvist M, Jirström K, Ponten F, James P, Andersson T.
WNT5A-mediated β-catenin-independent signalling is a novel regulator of cancer cell metabolism.
Carcinogenesis. 2014 35(4):784-94.
PubMed: 24293407 DOI: 10.1093/carcin/bgt390
273 Fei C, Atterby C, Edqvist PH, Pontén F, Zhang WW, Larsson E, Ryan FP.
Detection of the human endogenous retrovirus ERV3-encoded Env-protein in human tissues using antibody-based proteomics.
J R Soc Med. 2014 107(1):22-9.
PubMed: 24262892 DOI: 10.1177/0141076813509981
272 Popova SN, Bergqvist M, Dimberg A, Edqvist PH, Ekman S, Hesselager G, Ponten F, Smits A, Sooman L, Alafuzoff I.
Subtyping of gliomas of various WHO grades by the application of immunohistochemistry.
Histopathology. 2014 64(3):365-79.
PubMed: 24410805 DOI: 10.1111/his.12252
271 Edfors F, Boström T, Forsström B, Zeiler M, Johansson H, Lundberg E, Hober S, Lehtiö J, Mann M, Uhlen M.
Immunoproteomics using polyclonal antibodies and stable isotope-labeled affinity-purified recombinant proteins.
Mol Cell Proteomics. 2014 13(6):1611-24.
PubMed: 24722731 DOI: 10.1074/mcp.M113.034140
270 Boström T, Johansson HJ, Lehtiö J, Uhlén M, Hober S.
Investigating the Applicability of Antibodies Generated within the Human Protein Atlas as Capture Agents in Immunoenrichment Coupled to Mass Spectrometry.
J Proteome Res. 2014 Epub ahead of print
PubMed: 25231543 DOI: 10.1021/pr500691a
269 Algenäs C, Agaton C, Fagerberg L, Asplund A, Björling L, Björling E, Kampf C, Lundberg E, Nilsson P, Persson A, Wester K, Pontén F, Wernérus H, Uhlén M, Ottosson Takanen J, Hober S.
Antibody performance in western blot applications is context-dependent.
Biotechnol J. 2014 9(3):435-45.
PubMed: 24403002 DOI: 10.1002/biot.201300341
268 Forsström B, Bisławska Axnas B, Stengele KP, Bühler J, Albert TJ, Richmond TA, Jingxin Hu F, Nilsson P, Hudson EP, Rockberg J, Uhlen M.
Proteome-wide epitope mapping of antibodies using ultra-dense peptide arrays.
Mol Cell Proteomics. 2014 Epub ahead of print
PubMed: 24705123 DOI: 10.1074/mcp.M113.033308
267 Bachmann J, Burté F, Pramana S, Conte I, Brown BJ, Orimadegun AE, Ajetunmobi WA, Afolabi NK, Akinkunmi F, Omokhodion S, Akinbami FO, Shokunbi WA, Kampf C, Pawitan Y, Uhlén M, Sodeinde O, Schwenk JM, Wahlgren M, Fernandez-Reyes D, Nilsson P.
Affinity proteomics reveals elevated muscle proteins in plasma of children with cerebral malaria.
PLoS Pathog. 2014 10(4):e1004038.
PubMed: 24743550 DOI: 10.1371/journal.ppat.1004038
266 Darmanis S, Cui T, Drobin K, Li SC, Öberg K, Nilsson P, Schwenk JM, Giandomenico V.
Identification of candidate serum proteins for classifying well-differentiated small intestinal neuroendocrine tumors.
PLoS One. 2013 8(11):e81712.
PubMed: 24282616 DOI: 10.1371/journal.pone.0081712
265 Shoaie S, Karlsson F, Mardinoglu A, Nookaew I, Bordel S, Nielsen J.
Understanding the interactions between bacteria in the human gut through metabolic modeling.
Sci Rep. 2013 3():2532.
PubMed: 23982459 DOI: 10.1038/srep02532
264 Mardinoglu A, Gatto F, Nielsen J.
Genome-scale modeling of human metabolism - a systems biology approach.
Biotechnol J. 2013 8(9):985-96.
PubMed: 23613448 DOI: 10.1002/biot.201200275
263 Boman K, Larsson AH, Segersten U, Kuteeva E, Johannesson H, Nodin B, Eberhard J, Uhlén M, Malmström PU, Jirström K.
Membranous expression of podocalyxin-like protein is an independent factor of poor prognosis in urothelial bladder cancer.
Br J Cancer. 2013 108(11):2321-8.
PubMed: 23652315 DOI: 10.1038/bjc.2013.215
262 Larsson AH, Nodin B, Syk I, Palmquist I, Uhlén M, Eberhard J, Jirström K.
Podocalyxin-like protein expression in primary colorectal cancer and synchronous lymph node metastases.
Diagn Pathol. 2013 8():109.
PubMed: 23819542 DOI: 10.1186/1746-1596-8-109
261 Sernbo S, Borrebaeck CA, Uhlén M, Jirström K, Ek S.
Nuclear T-STAR protein expression correlates with HER2 status, hormone receptor negativity and prolonged recurrence free survival in primary breast cancer and decreased cancer cell growth in vitro.
PLoS One. 2013 8(7):e70596.
PubMed: 23923007 DOI: 10.1371/journal.pone.0070596
260 Zong NC, Li H, Li H, Lam MP, Jimenez RC, Kim CS, Deng N, Kim AK, Choi JH, Zelaya I, Liem D, Meyer D, Odeberg J, Fang C, Lu HJ, Xu T, Weiss J, Duan H, Uhlen M, Yates JR, Apweiler R, Ge J, Hermjakob H, Ping P.
Integration of cardiac proteome biology and medicine by a specialized knowledgebase.
Circ Res. 2013 113(9):1043-53.
PubMed: 23965338 DOI: 10.1161/CIRCRESAHA.113.301151
259 Gremel G, Grannas K, Sutton LA, Pontén F, Zieba A.
In situ Protein Detection for Companion Diagnostics.
Front Oncol. 2013 3():271.
PubMed: 24199171 DOI: 10.3389/fonc.2013.00271
258 Jansson L, Kampf C, Källskog O.
Functional stimulation of graft nerves has minor effects on insulin release from transplanted rat pancreatic islets.
Ups J Med Sci. 2013 118(4):209-16.
PubMed: 23977866 DOI: 10.3109/03009734.2013.818601
257 Nilsson CL, Berven F, Selheim F, Liu H, Moskal JR, Kroes RA, Sulman EP, Conrad CA, Lang FF, Andrén PE, Nilsson A, Carlsohn E, Lilja H, Malm J, Fenyö D, Subramaniyam D, Wang X, Gonzales-Gonzales M, Dasilva N, Diez P, Fuentes M, Végvári Á, Sjödin K, Welinder C, Laurell T, Fehniger TE, Lindberg H, Rezeli M, Edula G, Hober S, Marko-Varga G.
Chromosome 19 annotations with disease speciation: a first report from the Global Research Consortium.
J Proteome Res. 2013 12(1):135-50.
PubMed: 23249167 DOI: 10.1021/pr3008607
256 Malm J, Fehniger TE, Danmyr P, Végvári A, Welinder C, Lindberg H, Appelqvist R, Sjödin K, Wieslander E, Laurell T, Hober S, Berven FS, Fenyö D, Wang X, Andrén PE, Edula G, Carlsohn E, Fuentes M, Nilsson CL, Dahlbäck M, Rezeli M, Erlinge D, Marko-Varga G.
Developments in biobanking workflow standardization providing sample integrity and stability.
J Proteomics. 2013 95():38-45.
PubMed: 23856607 DOI: 10.1016/j.jprot.2013.06.035
255 Häggmark A, Byström S, Ayoglu B, Qundos U, Uhlén M, Khademi M, Olsson T, Schwenk JM, Nilsson P.
Antibody-based profiling of cerebrospinal fluid within multiple sclerosis.
Proteomics. 2013 13(15):2256-67.
PubMed: 23696371 DOI: 10.1002/pmic.201200580
254 Ayoglu B, Häggmark A, Khademi M, Olsson T, Uhlén M, Schwenk JM, Nilsson P.
Autoantibody profiling in multiple sclerosis using arrays of human protein fragments.
Mol Cell Proteomics. 2013 12(9):2657-72.
PubMed: 23732997 DOI: 10.1074/mcp.M112.026757
253 Drobin K, Nilsson P, Schwenk JM.
Highly multiplexed antibody suspension bead arrays for plasma protein profiling.
Methods Mol Biol. 2013 1023():137-45.
PubMed: 23765623 DOI: 10.1007/978-1-4614-7209-4_8
252 Kremer AN, van der Griendt JC, van der Meijden ED, Honders MW, Ayoglu B, Schwenk JM, Nilsson P, Falkenburg JH, Griffioen M.
Development of a coordinated allo T-cell and auto B-cell response against autosomal PTK2B after allogeneic hematopoietic stem cell transplantation.
Haematologica. 2013 Epub ahead of print
PubMed: 24097630 DOI: 10.3324/haematol.2013.086652
251 Qundos U, Hong MG, Tybring G, Divers M, Odeberg J, Uhlen M, Nilsson P, Schwenk JM.
Profiling post-centrifugation delay of serum and plasma with antibody bead arrays.
J Proteomics. 2013 Epub ahead of print
PubMed: 23631827 DOI: 10.1016/j.jprot.2013.04.020
250 Neiman M, Fredolini C, Johansson H, Lehtiö J, Nygren PA, Uhlén M, Nilsson P, Schwenk JM.
Selectivity analysis of single binder assays used in plasma protein profiling.
Proteomics. 2013 Epub ahead of print
PubMed: 24151238 DOI: 10.1002/pmic.201300030
249 Swamidoss IN, Kårsnäs A, Uhlmann V, Ponnusamy P, Kampf C, Simonsson M, Wählby C, Strand R.
Automated classification of immunostaining patterns in breast tissue from the human protein atlas.
J Pathol Inform. 2013 4(Suppl):S14.
PubMed: 23766936 DOI: 10.4103/2153-3539.109881
248 Sooman L, Lennartsson J, Gullbo J, Bergqvist M, Tsakonas G, Johansson F, Edqvist PH, Pontén F, Jaiswal A, Navani S, Alafuzoff I, Popova S, Blomquist E, Ekman S.
Vandetanib combined with a p38 MAPK inhibitor synergistically reduces glioblastoma cell survival.
Med Oncol. 2013 30(3):638.
PubMed: 23783486 DOI: 10.1007/s12032-013-0638-0
247 Rexhepaj E, Agnarsdóttir M, Bergman J, Edqvist PH, Bergqvist M, Uhlén M, Gallagher WM, Lundberg E, Ponten F.
A texture based pattern recognition approach to distinguish melanoma from non-melanoma cells in histopathological tissue microarray sections.
PLoS One. 2013 8(5):e62070.
PubMed: 23690928 DOI: 10.1371/journal.pone.0062070
246 Põlajeva J, Bergström T, Edqvist PH, Lundequist A, Sjösten A, Nilsson G, Smits A, Bergqvist M, Pontén F, Westermark B, Pejler G, Forsberg Nilsson K, Tchougounova E.
Glioma-derived macrophage migration inhibitory factor (MIF) promotes mast cell recruitment in a STAT5-dependent manner.
Mol Oncol. 2013 Epub ahead of print
PubMed: 24091309 DOI: 10.1016/j.molonc.2013.09.002
245 Perisic L, Hedin E, Razuvaev A, Lengquist M, Osterholm C, Folkersen L, Gillgren P, Paulsson-Berne G, Ponten F, Odeberg J, Hedin U.
Profiling of atherosclerotic lesions by gene and tissue microarrays reveals PCSK6 as a novel protease in unstable carotid atherosclerosis.
Arterioscler Thromb Vasc Biol. 2013 33(10):2432-43.
PubMed: 23908247 DOI: 10.1161/ATVBAHA.113.301743
244 O'Hurley G, Daly E, O'Grady A, Cummins R, Quinn C, Flanagan L, Pierce A, Fan Y, Lynn MA, Rafferty M, Fitzgerald D, Pontén F, Duffy MJ, Jirström K, Kay EW, Gallagher WM.
Investigation of Molecular Alterations of AKT-3 in Triple Negative Breast Cancer.
Histopathology. 2013 Epub ahead of print
PubMed: 24138071 DOI: 10.1111/his.12313
243 O Leary PC, Penny SA, Dolan RT, Kelly CM, Madden SF, Rexhepaj E, Brennan DJ, McCann AH, Pontén F, Uhlén M, Zagozdzon R, Duffy MJ, Kell MR, Jirström K, Gallagher WM.
Systematic antibody generation and validation via tissue microarray technology leading to identification of a novel protein prognostic panel in breast cancer.
BMC Cancer. 2013 13():175.
PubMed: 23547718 DOI: 10.1186/1471-2407-13-175
242 Nik AM, Reyahi A, Pontén F, Carlsson P.
Foxf2 in intestinal fibroblasts reduces numbers of Lgr5(+) stem cells and adenoma formation by inhibiting Wnt signaling.
Gastroenterology. 2013 144(5):1001-11.
PubMed: 23376422 DOI: 10.1053/j.gastro.2013.01.045
241 Mardinoglu A, Agren R, Kampf C, Asplund A, Nookaew I, Jacobson P, Walley AJ, Froguel P, Carlsson LM, Uhlen M, Nielsen J.
Integration of clinical data with a genome-scale metabolic model of the human adipocyte.
Mol Syst Biol. 2013 9():649.
PubMed: 23511207 DOI: 10.1038/msb.2013.5
240 Lindskog C, Ellström P, Olsen B, Pontén F, van Riel D, Munster VJ, González-Acuña D, Kuiken T, Jourdain E.
European H16N3 gull influenza virus attaches to the human respiratory tract and eye.
PLoS One. 2013 8(4):e60757.
PubMed: 23593303 DOI: 10.1371/journal.pone.0060757
239 Li A, Estigoy C, Raftery M, Cameron D, Odeberg J, Pontén F, Lal S, Dos Remedios CG.
Heart research advances using database search engines, human protein atlas and the sydney heart bank.
Heart Lung Circ. 2013 22(10):819-26.
PubMed: 23856366 DOI: 10.1016/j.hlc.2013.06.006
238 Huvila J, Talve L, Carpén O, Edqvist PH, Pontén F, Grénman S, Auranen A.
Progesterone receptor negativity is an independent risk factor for relapse in patients with early stage endometrioid endometrial adenocarcinoma.
Gynecol Oncol. 2013 130(3):463-9.
PubMed: 23777659 DOI: 10.1016/j.ygyno.2013.06.015
237 Giandomenico V, Modlin IM, Pontén F, Nilsson M, Landegren U, Bergqvist J, Khan MS, Millar RP, Långström B, Borlak J, Eriksson B, Nielsen B, Baltzer L, Waterton JC, Ahlström H, Öberg K.
Improving the diagnosis and management of neuroendocrine tumors: utilizing new advances in biomarker and molecular imaging science.
Neuroendocrinology. 2013 98(1):16-30.
PubMed: 23446227 DOI: 10.1159/000348832
236 Geiger T, Velic A, Macek B, Lundberg E, Kampf C, Nagaraj N, Uhlen M, Cox J, Mann M.
Initial quantitative proteomic map of 28 mouse tissues using the SILAC mouse.
Mol Cell Proteomics. 2013 12(6):1709-22.
PubMed: 23436904 DOI: 10.1074/mcp.M112.024919
235 Gedda L, Björkelund H, Lebel L, Asplund A, Dubois L, Wester K, Penagos N, Malmqvist M, Andersson K.
Evaluation of Real-Time Immunohistochemistry and Interaction Map as an Alternative Objective Assessment of HER2 Expression in Human Breast Cancer Tissue.
Appl Immunohistochem Mol Morphol. 2013 Epub ahead of print
PubMed: 23455178 DOI: 10.1097/PAI.0b013e318281162d
234 Gardberg M, Kaipio K, Lehtinen L, Mikkonen P, Heuser VD, Talvinen K, Iljin K, Kampf C, Uhlen M, Grénman R, Koivisto M, Carpén O.
FHOD1, a Formin Upregulated in Epithelial-Mesenchymal Transition, Participates in Cancer Cell Migration and Invasion.
PLoS One. 2013 8(9):e74923.
PubMed: 24086398 DOI: 10.1371/journal.pone.0074923
233 Elsir T, Edqvist PH, Carlson J, Ribom D, Bergqvist M, Ekman S, Popova SN, Alafuzoff I, Ponten F, Nistér M, Smits A.
A study of embryonic stem cell-related proteins in human astrocytomas: Identification of Nanog as a predictor of survival.
Int J Cancer. 2013 Epub ahead of print
PubMed: 24037901 DOI: 10.1002/ijc.28441
232 Edvardsson K, Nguyen-Vu T, Kalasekar SM, Pontén F, Gustafsson JÅ, Williams C.
Estrogen receptor β expression induces changes in the microRNA pool in human colon cancer cells.
Carcinogenesis. 2013 34(7):1431-41.
PubMed: 23436804 DOI: 10.1093/carcin/bgt067
231 Danielsson F, Skogs M, Huss M, Rexhepaj E, O'Hurley G, Klevebring D, Pontén F, Gad AK, Uhlén M, Lundberg E.
Majority of differentially expressed genes are down-regulated during malignant transformation in a four-stage model.
Proc Natl Acad Sci U S A. 2013 110(17):6853-8.
PubMed: 23569271 DOI: 10.1073/pnas.1216436110
230 Cepeda D, Ng HF, Sharifi HR, Mahmoudi S, Cerrato VS, Fredlund E, Magnusson K, Nilsson H, Malyukova A, Rantala J, Klevebring D, Viñals F, Bhaskaran N, Zakaria SM, Rahmanto AS, Grotegut S, Nielsen ML, Szigyarto CA, Sun D, Lerner M, Navani S, Widschwendter M, Uhlén M, Jirström K, Pontén F, Wohlschlegel J, Grandér D, Spruck C, Larsson LG, Sangfelt O.
CDK-mediated activation of the SCF(FBXO) (28) ubiquitin ligase promotes MYC-driven transcription and tumourigenesis and predicts poor survival in breast cancer.
EMBO Mol Med. 2013 5(7):999-1018.
PubMed: 23776131 DOI: 10.1002/emmm.201202341
229 Billström E, Sundström-Poromaa I, Stålberg K, Asplund A, Hellberg D.
Socioeconomic characteristics, housing conditions and criminal offences among women with cervical neoplasia.
Acta Obstet Gynecol Scand. 2013 92(8):888-94.
PubMed: 23590762 DOI: 10.1111/aogs.12151
228 Andersson S, Konrad A, Ashok N, Pontén F, Hober S, Asplund A.
Antibodies Biotinylated Using a Synthetic Z-domain from Protein A Provide Stringent In Situ Protein Detection.
J Histochem Cytochem. 2013 Epub ahead of print
PubMed: 23920108 DOI: 10.1369/0022155413502360
227 Stadler C, Rexhepaj E, Singan VR, Murphy RF, Pepperkok R, Uhlén M, Simpson JC, Lundberg E.
Immunofluorescence and fluorescent-protein tagging show high correlation for protein localization in mammalian cells.
Nat Methods. 2013 Apr;10(4):315-23 2013
PubMed: 23435261 DOI: 10.1038/nmeth.2377
226 Lindén M, Segersten U, Runeson M, Wester K, Busch C, Pettersson U, Lind SB, Malmström PU.
Tumour expression of bladder cancer-associated urinary proteins.
BJU Int. 2013 112(3):407-15.
PubMed: 23470167 DOI: 10.1111/j.1464-410X.2012.11653.x
225 Danielsson F, Wiking M, Mahdessian D, Skogs M, Ait Blal H, Hjelmare M, Stadler C, Uhlén M, Lundberg E.
RNA deep sequencing as a tool for selection of cell lines for systematic subcellular localization of all human proteins.
J Proteome Res. 2013 12(1):299-307.
PubMed: 23227862 DOI: 10.1021/pr3009308
224 Liu S, Im H, Bairoch A, Cristofanilli M, Chen R, Deutsch EW, Dalton S, Fenyo D, Fanayan S, Gates C, Gaudet P, Hincapie M, Hanash S, Kim H, Jeong SK, Lundberg E, Mias G, Menon R, Mu Z, Nice E, Paik YK, Uhlen M, Wells L, Wu SL, Yan F, Zhang F, Zhang Y, Snyder M, Omenn GS, Beavis RC, Hancock WS.
A chromosome-centric human proteome project (C-HPP) to characterize the sets of proteins encoded in chromosome 17.
J Proteome Res. 2013 12(1):45-57.
PubMed: 23259914 DOI: 10.1021/pr300985j
223 Peña C, Céspedes MV, Lindh MB, Kiflemariam S, Mezheyeuski A, Edqvist PH, Hägglöf C, Birgisson H, Bojmar L, Jirström K, Sandström P, Olsson E, Veerla S, Gallardo A, Sjöblom T, Chang AC, Reddel RR, Mangues R, Augsten M, Ostman A.
STC1 Expression By Cancer-Associated Fibroblasts Drives Metastasis of Colorectal Cancer.
Cancer Res. 2013 73(4):1287-1297.
PubMed: 23243022 DOI: 10.1158/0008-5472.CAN-12-1875
222 Osterholm C, Folkersen L, Lengquist M, Pontén F, Renné T, Li J, Hedin U.
Increased expression of heparanase in symptomatic carotid atherosclerosis.
Atherosclerosis. 2013 226(1):67-73.
PubMed: 23137827 DOI: 10.1016/j.atherosclerosis.2012.09.030
221 Botling J, Edlund K, Lohr M, Hellwig B, Holmberg L, Lambe M, Berglund A, Ekman S, Bergqvist M, Pontén F, König A, Fernandes O, Karlsson M, Helenius G, Karlsson C, Rahnenführer J, Hengstler JG, Micke P.
Biomarker discovery in non-small cell lung cancer: integrating gene expression profiling, meta-analysis, and tissue microarray validation.
Clin Cancer Res. 2013 19(1):194-204.
PubMed: 23032747 DOI: 10.1158/1078-0432.CCR-12-1139
220 Lohr M, Edlund K, Botling J, Hammad S, Hellwig B, Othman A, Berglund A, Lambe M, Holmberg L, Ekman S, Bergqvist M, Pontén F, Cadenas C, Marchan R, Hengstler JG, Rahnenführer J, Micke P.
The prognostic relevance of tumour-infiltrating plasma cells and immunoglobulin kappa C indicates an important role of the humoral immune response in non-small cell lung cancer.
Cancer Lett. 2013 333(2):222-8.
PubMed: 23370224 DOI: 10.1016/j.canlet.2013.01.036
219 Hansson SF, Korsgren S, Pontén F, Korsgren O.
Enteroviruses and the pathogenesis of type 1 diabetes revisited: cross-reactivity of enterovirus capsid protein (VP1) antibodies with human mitochondrial proteins.
J Pathol. 2013 229(5):719-28.
PubMed: 23335350 DOI: 10.1002/path.4166
218 Bozóky B, Savchenko A, Csermely P, Korcsmáros T, Dúl Z, Pontén F, Székely L, Klein G.
Novel signatures of cancer-associated fibroblasts.
Int J Cancer. 2013 133(2):286-93.
PubMed: 23319410 DOI: 10.1002/ijc.28035
217 Fagerberg L, Oksvold P, Skogs M, Algenäs C, Lundberg E, Pontén F, Sivertsson A, Odeberg J, Klevebring D, Kampf C, Asplund A, Sjöstedt E, Al-Khalili Szigyarto C, Edqvist PH, Olsson I, Rydberg U, Hudson P, Ottosson Takanen J, Berling H, Björling L, Tegel H, Rockberg J, Nilsson P, Navani S, Jirström K, Mulder J, Schwenk JM, Zwahlen M, Hober S, Forsberg M, von Feilitzen K, Uhlén M.
Contribution of antibody-based protein profiling to the human Chromosome-centric Proteome Project (C-HPP).
J Proteome Res. 2013 12(6):2439-48.
PubMed: 23276153 DOI: 10.1021/pr300924j
216 Eberhard J, Gaber A, Wangefjord S, Nodin B, Uhlén M, Ericson Lindquist K, Jirström K.
A cohort study of the prognostic and treatment predictive value of SATB2 expression in colorectal cancer.
Br J Cancer. 2012 106(5):931-8.
PubMed: 22333599 DOI: 10.1038/bjc.2012.34
215 Larsson A, Fridberg M, Gaber A, Nodin B, Levéen P, Jönsson G, Uhlén M, Birgisson H, Jirström K.
Validation of podocalyxin-like protein as a biomarker of poor prognosis in colorectal cancer.
BMC Cancer. 2012 12():282.
PubMed: 22769594 DOI: 10.1186/1471-2407-12-282
214 Lamond AI, Uhlen M, Horning S, Makarov A, Robinson CV, Serrano L, Hartl FU, Baumeister W, Werenskiold AK, Andersen JS, Vorm O, Linial M, Aebersold R, Mann M.
Advancing cell biology through proteomics in space and time (PROSPECTS).
Mol Cell Proteomics. 2012 11(3):O112.017731.
PubMed: 22311636 DOI: 10.1074/mcp.O112.017731
213 Nodin B, Fridberg M, Uhlén M, Jirström K.
Discovery of dachshund 2 protein as a novel biomarker of poor prognosis in epithelial ovarian cancer.
J Ovarian Res. 2012 5(1):6.
PubMed: 22284433 DOI: 10.1186/1757-2215-5-6
212 Mardinoglu A, Nielsen J.
Systems medicine and metabolic modelling.
J Intern Med. 2012 271(2):142-54.
PubMed: 22142312 DOI: 10.1111/j.1365-2796.2011.02493.x
211 Agren R, Bordel S, Mardinoglu A, Pornputtapong N, Nookaew I, Nielsen J.
Reconstruction of genome-scale active metabolic networks for 69 human cell types and 16 cancer types using INIT.
PLoS Comput Biol. 2012 8(5):e1002518.
PubMed: 22615553 DOI: 10.1371/journal.pcbi.1002518
210 Hudson EP, Nikoshkov A, Uhlen M, Rockberg J.
Automated solid-phase subcloning based on beads brought into proximity by magnetic force.
PLoS One. 2012 7(5):e37429.
PubMed: 22624028 DOI: 10.1371/journal.pone.0037429
209 Hudson EP, Uhlen M, Rockberg J.
Multiplex epitope mapping using bacterial surface display reveals both linear and conformational epitopes.
Sci Rep. 2012 2():706.
PubMed: 23050090 DOI: 10.1038/srep00706
208 Hjelm B, Forsström B, Löfblom J, Rockberg J, Uhlén M.
Parallel immunizations of rabbits using the same antigen yield antibodies with similar, but not identical, epitopes.
PLoS One. 2012 7(12):e45817.
PubMed: 23284606 DOI: 10.1371/journal.pone.0045817
207 Adler B, Boström T, Ekström S, Hober S, Laurell T.
Miniaturized and automated high-throughput verification of proteins in the ISET platform with MALDI MS.
Anal Chem. 2012 84(20):8663-9.
PubMed: 22971087 DOI: 10.1021/ac3017983
206 Buus S, Rockberg J, Forsström B, Nilsson P, Uhlen M, Schafer-Nielsen C.
High-resolution mapping of linear antibody epitopes using ultrahigh-density peptide microarrays.
Mol Cell Proteomics. 2012 11(12):1790-800.
PubMed: 22984286 DOI: 10.1074/mcp.M112.020800
205 Lindén M, Lind SB, Mayrhofer C, Segersten U, Wester K, Lyutvinskiy Y, Zubarev R, Malmström PU, Pettersson U.
Proteomic analysis of urinary biomarker candidates for nonmuscle invasive bladder cancer.
Proteomics. 2012 12(1):135-44.
PubMed: 22065568 DOI: 10.1002/pmic.201000810
204 Larance M, Kirkwood KJ, Xirodimas DP, Lundberg E, Uhlen M, Lamond AI.
Characterization of MRFAP1 turnover and interactions downstream of the NEDD8 pathway.
Mol Cell Proteomics. 2012 11(3):M111.014407.
PubMed: 22038470 DOI: 10.1074/mcp.M111.014407
203 Dengjel J, Høyer-Hansen M, Nielsen MO, Eisenberg T, Harder LM, Schandorff S, Farkas T, Kirkegaard T, Becker AC, Schroeder S, Vanselow K, Lundberg E, Nielsen MM, Kristensen AR, Akimov V, Bunkenborg J, Madeo F, Jäättelä M, Andersen JS.
Identification of autophagosome-associated proteins and regulators by quantitative proteomic analysis and genetic screens.
Mol Cell Proteomics. 2012 11(3):M111.014035.
PubMed: 22311637 DOI: 10.1074/mcp.M111.014035
202 Bock T, Moest H, Omasits U, Dolski S, Lundberg E, Frei A, Hofmann A, Bausch-Fluck D, Jacobs A, Krayenbuehl N, Uhlen M, Aebersold R, Frei K, Wollscheid B.
Proteomic analysis reveals drug accessible cell surface N-glycoproteins of primary and established glioblastoma cell lines.
J Proteome Res. 2012 11(10):4885-93.
PubMed: 22909291 DOI: 10.1021/pr300360a
201 Solnestam BW, Stranneheim H, Hällman J, Käller M, Lundberg E, Lundeberg J, Akan P.
Comparison of total and cytoplasmic mRNA reveals global regulation by nuclear retention and miRNAs.
BMC Genomics. 2012 13():574.
PubMed: 23110385 DOI: 10.1186/1471-2164-13-574
200 Akan P, Alexeyenko A, Costea PI, Hedberg L, Solnestam BW, Lundin S, Hällman J, Lundberg E, Uhlén M, Lundeberg J.
Comprehensive analysis of the genome transcriptome and proteome landscapes of three tumor cell lines.
Genome Med. 2012 4(11):86.
PubMed: 23158748 DOI: 10.1186/gm387
199 Li J, Shariff A, Wiking M, Lundberg E, Rohde GK, Murphy RF.
Estimating microtubule distributions from 2D immunofluorescence microscopy images reveals differences among human cultured cell lines.
PLoS One. 2012 7(11):e50292.
PubMed: 23209697 DOI: 10.1371/journal.pone.0050292
198 Li J, Newberg JY, Uhlén M, Lundberg E, Murphy RF.
Automated analysis and reannotation of subcellular locations in confocal images from the human protein atlas.
PLoS One. 2012 7(11):e50514.
PubMed: 23226299 DOI: 10.1371/journal.pone.0050514
197 Kampf C, Bergman J, Oksvold P, Asplund A, Navani S, Wiking M, Lundberg E, Uhlén M, Ponten F.
A tool to facilitate clinical biomarker studies--a tissue dictionary based on the Human Protein Atlas.
BMC Med. 2012 10():103.
PubMed: 22971420 DOI: 10.1186/1741-7015-10-103
196 Sillars-Hardebol AH, Carvalho B, Beliën JA, de Wit M, Delis-van Diemen PM, Tijssen M, van de Wiel MA, Pontén F, Meijer GA, Fijneman RJ.
CSE1L, DIDO1 and RBM39 in colorectal adenoma to carcinoma progression.
Cell Oncol (Dordr). 2012 35(4):293-300.
PubMed: 22711543 DOI: 10.1007/s13402-012-0088-2
195 Dieterich LC, Mellberg S, Langenkamp E, Zhang L, Zieba A, Salomäki H, Teichert M, Huang H, Edqvist PH, Kraus T, Augustin HG, Olofsson T, Larsson E, Söderberg O, Molema G, Pontén F, Georgii-Hemming P, Alafuzoff I, Dimberg A.
Transcriptional profiling of human glioblastoma vessels indicates a key role of VEGF-A and TGFβ2 in vascular abnormalization.
J Pathol. 2012 228(3):378-90.
PubMed: 22786655 DOI: 10.1002/path.4072
194 Edqvist PH, Niklasson M, Vidal-Sanz M, Hallböök F, Forsberg-Nilsson K.
Platelet-derived growth factor over-expression in retinal progenitors results in abnormal retinal vessel formation.
PLoS One. 2012 7(8):e42488.
PubMed: 22880002 DOI: 10.1371/journal.pone.0042488
193 Sjöberg R, Sundberg M, Gundberg A, Sivertsson A, Schwenk JM, Uhlén M, Nilsson P.
Validation of affinity reagents using antigen microarrays.
N Biotechnol. 2012 29(5):555-63.
PubMed: 22134247 DOI: 10.1016/j.nbt.2011.11.009
192 Arabi A, Ullah K, Branca RM, Johansson J, Bandarra D, Haneklaus M, Fu J, Ariës I, Nilsson P, Den Boer ML, Pokrovskaja K, Grandér D, Xiao G, Rocha S, Lehtiö J, Sangfelt O.
Proteomic screen reveals Fbw7 as a modulator of the NF-κB pathway.
Nat Commun. 2012 3():976.
PubMed: 22864569 DOI: 10.1038/ncomms1975
191 Medrek C, Pontén F, Jirström K, Leandersson K.
The presence of tumor associated macrophages in tumor stroma as a prognostic marker for breast cancer patients.
BMC Cancer. 2012 12(1):306.
PubMed: 22824040 DOI: 10.1186/1471-2407-12-306
190 Smits A, Jin Z, Elsir T, Pedder H, Nistér M, Alafuzoff I, Dimberg A, Edqvist PH, Pontén F, Aronica E, Birnir B.
GABA-A Channel Subunit Expression in Human Glioma Correlates with Tumor Histology and Clinical Outcome.
PLoS One. 2012 7(5):e37041.
PubMed: 22615883 DOI: 10.1371/journal.pone.0037041
189 Asplund A, Edqvist PH, Schwenk JM, Pontén F.
Antibodies for profiling the human proteome-The Human Protein Atlas as a resource for cancer research.
Proteomics. 2012 12(13):2067-77.
PubMed: 22623277 DOI: 10.1002/pmic.201100504
188 Wallgard E, Nitzsche A, Larsson J, Guo X, Dieterich LC, Dimberg A, Olofsson T, Pontén FC, Mäkinen T, Kalén M, Hellström M.
Paladin (X99384) is expressed in the vasculature and shifts from endothelial to vascular smooth muscle cells during mouse development.
Dev Dyn. 2012 241(4):770-86.
PubMed: 22354871 DOI: 10.1002/dvdy.23753
187 Sillars-Hardebol AH, Carvalho B, Tijssen M, Beliën JA, de Wit M, Delis-van Diemen PM, Pontén F, van de Wiel MA, Fijneman RJ, Meijer GA.
TPX2 and AURKA promote 20q amplicon-driven colorectal adenoma to carcinoma progression.
Gut. 2012 61(11):1568-75.
PubMed: 22207630 DOI: 10.1136/gutjnl-2011-301153
186 Lindskog C, Korsgren O, Pontén F, Eriksson JW, Johansson L, Danielsson A.
Novel pancreatic beta cell-specific proteins: antibody-based proteomics for identification of new biomarker candidates.
J Proteomics. 2012 75(9):2611-20.
PubMed: 22465717 DOI: 10.1016/j.jprot.2012.03.008
185 Li A, Ponten F, dos Remedios CG.
The interactome of LIM domain proteins: the contributions of LIM domain proteins to heart failure and heart development.
Proteomics. 2012 12(2):203-25.
PubMed: 22253135 DOI: 10.1002/pmic.201100492
184 Kiflemariam S, Andersson S, Asplund A, Pontén F, Sjöblom T.
Scalable in situ hybridization on tissue arrays for validation of novel cancer and tissue-specific biomarkers.
PLoS One. 2012 7(3):e32927.
PubMed: 22412953 DOI: 10.1371/journal.pone.0032927
183 Kampf C, Olsson I, Ryberg U, Sjöstedt E, Pontén F.
Production of tissue microarrays, immunohistochemistry staining and digitalization within the human protein atlas.
J Vis Exp. 2012 (63):.
PubMed: 22688270 DOI: 10.3791/3620
182 Edlund K, Lindskog C, Saito A, Berglund A, Pontén F, Göransson-Kultima H, Isaksson A, Jirström K, Planck M, Johansson L, Lambe M, Holmberg L, Nyberg F, Ekman S, Bergqvist M, Landelius P, Lamberg K, Botling J, Ostman A, Micke P.
CD99 is a novel prognostic stromal marker in non-small cell lung cancer.
Int J Cancer. 2012 131(10):2264-73.
PubMed: 22392539 DOI: 10.1002/ijc.27518
181 Samir R, Asplund A, Tot T, Pekar G, Hellberg D.
Oral contraceptive and progestin-only use correlates to tissue tumor marker expression in women with cervical intraepithelial neoplasia.
Contraception. 2012 85(3):288-93.
PubMed: 22067748 DOI: 10.1016/j.contraception.2011.09.001
180 Stadler C, Hjelmare M, Neumann B, Jonasson K, Pepperkok R, Uhlén M, Lundberg E
Systematic validation of antibody binding and protein subcellular localization using siRNA and confocal microscopy.
J Proteomics. 2012 2236–2251
PubMed: 22361696 DOI: 10.1016/j.jprot.2012.01.030
179 Uhlén M, Oksvold P, Älgenäs C, Hamsten C, Fagerberg L, Klevebring D, Lundberg E, Odeberg J, Pontén F, Kondo T, Sivertsson Å.
Antibody-based protein profiling of the human chromosome 21.
Mol Cell Proteomics. 2012 11(3):M111.013458.
PubMed: 22042635 DOI: 10.1074/mcp.M111.013458
178 de Wit M, Jimenez CR, Carvalho B, Belien JA, Delis-van Diemen PM, Mongera S, Piersma SR, Vikas M, Navani S, Pontén F, Meijer GA, Fijneman RJ.
Cell surface proteomics identifies glucose transporter type 1 and prion protein as candidate biomarkers for colorectal adenoma-to-carcinoma progression.
Gut. 2012 61(6):855-64.
PubMed: 21890811 DOI: 10.1136/gutjnl-2011-300511
177 Sillars-Hardebol AH, Carvalho B, Beliën JA, de Wit M, Delis-van Diemen PM, Tijssen M, van de Wiel MA, Pontén F, Fijneman RJ, Meijer GA.
BCL2L1 has a functional role in colorectal cancer and its protein expression is associated with chromosome 20q gain.
J Pathol. 2012 226(3):442-50.
PubMed: 22009326 DOI: 10.1002/path.2983
176 Häggmark A, Neiman M, Drobin K, Zwahlen M, Uhlén M, Nilsson P, Schwenk JM.
Classification of protein profiles from antibody microarrays using heat and detergent treatment.
N Biotechnol. 2012 29(5):564-70.
PubMed: 22023822 DOI: 10.1016/j.nbt.2011.10.005
175 Ahmad Y, Boisvert FM, Lundberg E, Uhlen M, Lamond AI.
Systematic analysis of protein pools, isoforms, and modifications affecting turnover and subcellular localization.
Mol Cell Proteomics. 2012 11(3):M111.013680.
PubMed: 22002106 DOI: 10.1074/mcp.M111.013680
174 Alpár A, Attems J, Mulder J, Hökfelt T, Harkany T.
The renaissance of Ca2+-binding proteins in the nervous system: secretagogin takes center stage.
Cell Signal. 2012 24(2):378-87.
PubMed: 21982882 DOI: 10.1016/j.cellsig.2011.09.028
173 Zeiler M, Straube WL, Lundberg E, Uhlen M, Mann M.
A Protein Epitope Signature Tag (PrEST) library allows SILAC-based absolute quantification and multiplexed determination of protein copy numbers in cell lines.
Mol Cell Proteomics. 2012 11(3):O111.009613.
PubMed: 21964433 DOI: 10.1074/mcp.O111.009613
172 Ståhl PL, Bjursell MK, Mahdessian H, Hober S, Jirström K, Lundeberg J.
Translational database selection and multiplexed sequence capture for up front filtering of reliable breast cancer biomarker candidates.
PLoS One. 2011 6(6):e20794.
PubMed: 21698250 DOI: 10.1371/journal.pone.0020794
171 Wållberg H, Löfdahl PK, Tschapalda K, Uhlén M, Tolmachev V, Nygren PK, Ståhl S.
Affinity recovery of eight HER2-binding affibody variants using an anti-idiotypic affibody molecule as capture ligand.
Protein Expr Purif. 2011 76(1):127-35.
PubMed: 21029777 DOI: 10.1016/j.pep.2010.10.008
170 Malmberg J, Sandström M, Wester K, Tolmachev V, Orlova A.
Comparative biodistribution of imaging agents for in vivo molecular profiling of disseminated prostate cancer in mice bearing prostate cancer xenografts: focus on 111In- and 125I-labeled anti-HER2 humanized monoclonal trastuzumab and ABY-025 affibody.
Nucl Med Biol. 2011 38(8):1093-102.
PubMed: 22137850 DOI: 10.1016/j.nucmedbio.2011.04.005
169 Gantelius J, Bass T, Sjöberg R, Nilsson P, Andersson-Svahn H.
A lateral flow protein microarray for rapid and sensitive antibody assays.
Int J Mol Sci. 2011 12(11):7748-59.
PubMed: 22174629 DOI: 10.3390/ijms12117748
168 Ståhl PL, Stranneheim H, Asplund A, Berglund L, Pontén F, Lundeberg J.
Sun-induced nonsynonymous p53 mutations are extensively accumulated and tolerated in normal appearing human skin.
J Invest Dermatol. 2011 131(2):504-8.
PubMed: 20944651 DOI: 10.1038/jid.2010.302
167 Samir R, Asplund A, Tot T, Pekar G, Hellberg D.
High-risk HPV infection and CIN grade correlates to the expression of c-myc, CD4+, FHIT, E-cadherin, Ki-67, and p16INK4a.
J Low Genit Tract Dis. 2011 15(4):280-6.
PubMed: 21558960 DOI: 10.1097/LGT.0b013e318215170c
166 Lindström AK, Asplund A, Hellberg D.
Correlation between LRIG1 and LRIG2 expressions and expression of 11 tumor markers, with special reference to tumor suppressors, in CIN and normal cervical epithelium.
Gynecol Oncol. 2011 122(2):372-6.
PubMed: 21632100 DOI: 10.1016/j.ygyno.2011.04.049
165 Kato BS, Nicholson G, Neiman M, Rantalainen M, Holmes CC, Barrett A, Uhlen M, Nilsson P, Spector TD, Schwenk JM.
Variance decomposition of protein profiles from antibody arrays using a longitudinal twin model.
Proteome Sci. 2011 9(1):73.
PubMed: 22093360 DOI: 10.1186/1477-5956-9-73
164 Gremel G, Ryan D, Rafferty M, Lanigan F, Hegarty S, Lavelle M, Murphy I, Unwin L, Joyce C, Faller W, McDermott EW, Sheahan K, Ponten F, Gallagher WM.
Functional and prognostic relevance of the homeobox protein MSX2 in malignant melanoma.
Br J Cancer. 2011 105(4):565-74.
PubMed: 21730974 DOI: 10.1038/bjc.2011.249
163 Wallin U, Glimelius B, Jirström K, Darmanis S, Nong RY, Pontén F, Johansson C, Påhlman L, Birgisson H.
Growth differentiation factor 15: a prognostic marker for recurrence in colorectal cancer.
Br J Cancer. 2011 104(10):1619-27.
PubMed: 21468045 DOI: 10.1038/bjc.2011.112
162 Hjelm B, Brennan DJ, Zendehrokh N, Eberhard J, Nodin B, Gaber A, Pontén F, Johannesson H, Smaragdi K, Frantz C, Hober S, Johnson LB, Påhlman S, Jirström K, Uhlen M.
High nuclear RBM3 expression is associated with an improved prognosis in colorectal cancer.
Proteomics Clin Appl. 2011 5(11-12):624-35.
PubMed: 21956899 DOI: 10.1002/prca.201100020
161 Jonsson L, Gaber A, Ulmert D, Uhlén M, Bjartell A, Jirström K.
High RBM3 expression in prostate cancer independently predicts a reduced risk of biochemical recurrence and disease progression.
Diagn Pathol. 2011 6:91.
PubMed: 21955582 DOI: 10.1186/1746-1596-6-91
160 Nishibori Y, Katayama K, Parikka M, Oddsson A, Nukui M, Hultenby K, Wernerson A, He B, Ebarasi L, Raschperger E, Norlin J, Uhlén M, Patrakka J, Betsholtz C, Tryggvason K.
Glcci1 deficiency leads to proteinuria.
J Am Soc Nephrol. 2011 22(11):2037-46.
PubMed: 21949092 DOI: 10.1681/ASN.2010111147
159 Larsson A, Johansson ME, Wangefjord S, Gaber A, Nodin B, Kucharzewska P, Welinder C, Belting M, Eberhard J, Johnsson A, Uhlén M, Jirström K.
Overexpression of podocalyxin-like protein is an independent factor of poor prognosis in colorectal cancer.
Br J Cancer. 2011 105(5):666-72.
PubMed: 21829192 DOI: 10.1038/bjc.2011.295
158 Sistani L, Dunér F, Udumala S, Hultenby K, Uhlen M, Betsholtz C, Tryggvason K, Wernerson A, Patrakka J.
Pdlim2 is a novel actin-regulating protein of podocyte foot processes.
Kidney Int. 2011 80(10):1045-54.
PubMed: 21814175 DOI: 10.1038/ki.2011.231
157 Ehlén O, Nodin B, Rexhepaj E, Brändstedt J, Uhlén M, Alvarado-Kristensson M, Pontén F, Brennan DJ, Jirström K.
RBM3-Regulated Genes Promote DNA Integrity and Affect Clinical Outcome in Epithelial Ovarian Cancer.
Transl Oncol. 2011 4(4):212-21.
PubMed: 21804916
156 Jonsson L, Bergman J, Nodin B, Manjer J, Pontén F, Uhlén M, Jirström K.
Low RBM3 protein expression correlates with tumour progression and poor prognosis in malignant melanoma: an analysis of 215 cases from the Malmö Diet and Cancer Study.
J Transl Med. 2011 9():114.
PubMed: 21777469 DOI: 10.1186/1479-5876-9-114
155 Legrain P, Aebersold R, Archakov A, Bairoch A, Bala K, Beretta L, Bergeron J, Borchers CH, Corthals GL, Costello CE, Deutsch EW, Domon B, Hancock W, He F, Hochstrasser D, Marko-Varga G, Salekdeh GH, Sechi S, Snyder M, Srivastava S, Uhlén M, Wu CH, Yamamoto T, Paik YK, Omenn GS.
The human proteome project: current state and future direction.
Mol Cell Proteomics. 2011 10(7):M111.009993.
PubMed: 21742803 DOI: 10.1074/mcp.M111.009993
154 Fagerberg L, Strömberg S, El-Obeid A, Gry M, Nilsson K, Uhlen M, Ponten F, Asplund A.
Large-scale protein profiling in human cell lines using antibody-based proteomics.
J Proteome Res. 2011 10(9):4066-75.
PubMed: 21726073 DOI: 10.1021/pr200259v
153 Larsson K, Hofström C, Lindskog C, Hansson M, Angelidou P, Hökfelt T, Uhlén M, Wernérus H, Gräslund T, Hober S.
Novel antigen design for the generation of antibodies to G-protein-coupled receptors.
J Immunol Methods. 2011 370(1-2):14-23.
PubMed: 21605562 DOI: 10.1016/j.jim.2011.05.001
152 Stanić D, Mulder J, Watanabe M, Hökfelt T.
Characterization of NPY Y2 receptor protein expression in the mouse brain. II. Coexistence with NPY, the Y1 receptor, and other neurotransmitter-related molecules.
J Comp Neurol. 2011 519(7):1219-57.
PubMed: 21452195 DOI: 10.1002/cne.22608
151 Lindfors C, Nilsson IA, Garcia-Roves PM, Zuberi AR, Karimi M, Donahue LR, Roopenian DC, Mulder J, Uhlén M, Ekström TJ, Davisson MT, Hökfelt TG, Schalling M, Johansen JE.
Hypothalamic mitochondrial dysfunction associated with anorexia in the anx/anx mouse.
Proc Natl Acad Sci U S A. 2011 108(44):18108-13.
PubMed: 22025706 DOI: 10.1073/pnas.1114863108
150 Colwill K, Persson H, Jarvik NE, Wyrzucki A, Wojcik J, Koide A, Kossiakoff AA, Koide S, Sidhu S, Dyson MR, Pershad K, Pavlovic JD, Karatt-Vellatt A, Schofield DJ, Kay BK, McCafferty J, Mersmann M, Meier D, Mersmann J, Helmsing S, Hust M, Dübel S, Berkowicz S, Freemantle A, Spiegel M, Sawyer A, Layton D, Nice E, Dai A, Rocks O, Williton K, Fellouse FA, Hersi K, Pawson T, Nilsson P, Sundberg M, Sjöberg R, Sivertsson Å, Schwenk JM, Takanen JO, Hober S, Uhlén M, Dahlgren LG, Flores A, Johansson I, Weigelt J, Crombet L, Loppnau P, Kozieradzki I, Cossar D, Arrowsmith CH, Edwards AM, Gräslund S.
A roadmap to generate renewable protein binders to the human proteome.
Nat Methods. 2011 8(7):551-8.
PubMed: 21572409 DOI: 10.1038/nmeth.1607
149 Schwenk JM, Nilsson P.
Assessment of antibody specificity using suspension bead arrays.
Methods Mol Biol. 2011 785:183-9.
PubMed: 21901600 DOI: 10.1007/978-1-61779-286-1_12
148 Neiman M, Hedberg JJ, Dönnes PR, Schuppe-Koistinen I, Hanschke S, Schindler R, Uhlén M, Schwenk JM, Nilsson P.
Plasma profiling reveals human fibulin-1 as candidate marker for renal impairment.
J Proteome Res. 2011 10(11):4925-34.
PubMed: 21888404 DOI: 10.1021/pr200286c
147 Pontén F, Schwenk JM, Asplund A, Edqvist PH.
The Human Protein Atlas as a proteomic resource for biomarker discovery.
J Intern Med. 2011 270(5):428-46.
PubMed: 21752111 DOI: 10.1111/j.1365-2796.2011.02427.x
146 Tegel H, Yderland L, Boström T, Eriksson C, Ukkonen K, Vasala A, Neubauer P, Ottosson J, Hober S.
Parallel production and verification of protein products using a novel high-throughput screening method.
Biotechnol J. 2011 6(8):1018-25.
PubMed: 21681961 DOI: 10.1002/biot.201000430
145 Fagerberg L, Stadler C, Skogs M, Hjelmare M, Jonasson K, Wiking M, Abergh A, Uhlén M, Lundberg E.
Mapping the subcellular protein distribution in three human cell lines.
J Proteome Res. 2011 10(8):3766-77.
PubMed: 21675716 DOI: 10.1021/pr200379a
144 Magnusson K, de Wit M, Brennan DJ, Johnson LB, McGee SF, Lundberg E, Naicker K, Klinger R, Kampf C, Asplund A, Wester K, Gry M, Bjartell A, Gallagher WM, Rexhepaj E, Kilpinen S, Kallioniemi OP, Belt E, Goos J, Meijer G, Birgisson H, Glimelius B, Borrebaeck CA, Navani S, Uhlén M, O'Connor DP, Jirström K, Pontén F.
SATB2 in combination with cytokeratin 20 identifies over 95% of all colorectal carcinomas.
Am J Surg Pathol. 2011 35(7):937-48.
PubMed: 21677534 DOI: 10.1097/PAS.0b013e31821c3dae
143 Hjelm B, Forsström B, Igel U, Johannesson H, Stadler C, Lundberg E, Ponten F, Sjöberg A, Rockberg J, Schwenk JM, Nilsson P, Johansson C, Uhlén M.
Generation of monospecific antibodies based on affinity capture of polyclonal antibodies.
Protein Sci. 2011 20(11):1824-35.
PubMed: 21898641 DOI: 10.1002/pro.716
142 Ström CE, Johansson F, Uhlén M, Szigyarto CA, Erixon K, Helleday T.
Poly (ADP-ribose) polymerase (PARP) is not involved in base excision repair but PARP inhibition traps a single-strand intermediate.
Nucleic Acids Res. 2011 39(8):3166-75.
PubMed: 21183466 DOI: 10.1093/nar/gkq1241
141 Häggarth L, Hägglöf C, Jaraj SJ, Wester K, Pontén F, Ostman A, Egevad L.
Diagnostic biomarkers of prostate cancer.
Scand J Urol Nephrol. 2011 45(1):60-7.
PubMed: 21034352 DOI: 10.3109/00365599.2010.526141
140 Jaraj SJ, Augsten M, Häggarth L, Wester K, Pontén F, Ostman A, Egevad L.
GAD1 is a biomarker for benign and malignant prostatic tissue.
Scand J Urol Nephrol. 2011 45(1):39-45.
PubMed: 21091088 DOI: 10.3109/00365599.2010.521189
139 Elkabets M, Gifford AM, Scheel C, Nilsson B, Reinhardt F, Bray MA, Carpenter AE, Jirström K, Magnusson K, Ebert BL, Pontén F, Weinberg RA, McAllister SS.
Human tumors instigate granulin-expressing hematopoietic cells that promote malignancy by activating stromal fibroblasts in mice.
J Clin Invest. 2011 121(2):784-99.
PubMed: 21266779 DOI: 10.1172/JCI43757
138 Xu X, Patrakka J, Sistani L, Uhlen M, Jalanko H, Betsholtz C, Tryggvason K.
Expression of novel podocyte-associated proteins sult1b1 and ankrd25.
Nephron Exp Nephrol. 2011 117(2):e39-46.
PubMed: 20720434 DOI: 10.1159/000320049
137 Falk R, Ramström M, Eriksson C, Uhlén M, Wernérus H, Hober S.
Targeted protein pullout from human tissue samples using competitive elution.
Biotechnol J. 2011 6(1):28-37.
PubMed: 21170982
136 Brennan DJ, Laursen H, O'Connor DP, Borgquist S, Uhlen M, Gallagher WM, Pontén F, Millikan RC, Rydén L, Jirström K.
Tumor-specific HMG-CoA reductase expression in primary premenopausal breast cancer predicts response to tamoxifen.
Breast Cancer Res. 2011 13(1):R12.
PubMed: 21281480 DOI: 10.1186/bcr2820
135 Uhlen M, Svahn HA.
Affinity reagents for lab on chips.
Lab Chip. 2011 11(8):1417-9.
PubMed: 21286659 DOI: 10.1039/c1lc90005f
134 Mälarstig A, Silveira A, Wågsäter D, Öhrvik J, Bäcklund A, Samnegård A, Khademi M, Hellenius ML, Leander K, Olsson T, Uhlén M, de Faire U, Eriksson P, Hamsten A.
Plasma CD93 concentration is a potential novel biomarker for coronary artery disease.
J Intern Med. 2011 270(3):229-36.
PubMed: 21332844 DOI: 10.1111/j.1365-2796.2011.02364.x
133 Schwenk JM, Nilsson P.
Antibody suspension bead arrays.
Methods Mol Biol. 2011 723:29-36.
PubMed: 21370057 DOI: 10.1007/978-1-61779-043-0_3
132 Ayoglu B, Häggmark A, Neiman M, Igel U, Uhlén M, Schwenk JM, Nilsson P.
Systematic antibody and antigen-based proteomic profiling with microarrays.
Expert Rev Mol Diagn. 2011 11(2):219-34.
PubMed: 21405972 DOI: 10.1586/erm.10.110
131 Navani, S.
The Human Protein Atlas
The Journal of Obstetrics and Gynaecology of India 2011 61(1):27-32.
DOI: 10.1007/s13224-011-0013-z
130 Tegel H, Ottosson J, Hober S.
Enhancing the protein production levels in Escherichia coli with a strong promoter.
FEBS J. 2011 278(5):729-39.
PubMed: 21205203 DOI: 10.1111/j.1742-4658.2010.07991.x
129 Gustavsson E, Ek S, Steen J, Kristensson M, Älgenäs C, Uhlén M, Wingren C, Ottosson J, Hober S, Borrebaeck CA.
Surrogate antigens as targets for proteome-wide binder selection.
N Biotechnol. 2011 28(4):302-11.
PubMed: 21232647 DOI: 10.1016/j.nbt.2010.12.005
128 Jakobsen L, Vanselow K, Skogs M, Toyoda Y, Lundberg E, Poser I, Falkenby LG, Bennetzen M, Westendorf J, Nigg EA, Uhlen M, Hyman AA, Andersen JS.
Novel asymmetrically localizing components of human centrosomes identified by complementary proteomics methods.
EMBO J. 2011 30(8):1520-35.
PubMed: 21399614 DOI: 10.1038/emboj.2011.63
127 Samir R, Asplund A, Tot T, Pekar G, Hellberg D.
Tissue tumor marker expression in smokers, including serum cotinine concentrations, in women with cervical intraepithelial neoplasia or normal squamous cervical epithelium.
Am J Obstet Gynecol. 2010 202(6):579.e1-7.
PubMed: 20060094 DOI: 10.1016/j.ajog.2009.11.034
126 Samir R, Tot T, Asplund A, Pekar G, Hellberg D.
Increased serum progesterone and estradiol correlate to increased COX-2 tissue expression in cervical intraepithelial neoplasia.
Anticancer Res. 2010 30(4):1217-22.
PubMed: 20530431
125 Kronqvist N, Malm M, Rockberg J, Hjelm B, Uhlén M, Ståhl S, Löfblom J.
Staphylococcal surface display in combinatorial protein engineering and epitope mapping of antibodies.
Recent Pat Biotechnol. 2010 4(3):171-82.
PubMed: 21171954 DOI: 10.2174/187220810793611536
124 Klevebring D, Fagerberg L, Lundberg E, Emanuelsson O, Uhlén M, Lundeberg J.
Analysis of transcript and protein overlap in a human osteosarcoma cell line.
BMC Genomics. 2010 11:684.
PubMed: 21126332 DOI: 10.1186/1471-2164-11-684
123 Jonasson K, Berglund L, Uhlen M.
The 6th HUPO Antibody Initiative (HAI) workshop: sharing data about affinity reagents and other recent developments. September 2009, Toronto, Canada.
Proteomics. 2010 10(11):2066-8.
PubMed: 20514648 DOI: 10.1002/pmic.201090040
122 International Cancer Genome Consortium
International network of cancer genome projects.
Nature. 2010 464(7291):993-8.
PubMed: 20393554 DOI: 10.1038/nature08987
121 Mulder J, Spence L, Tortoriello G, Dinieri JA, Uhlén M, Shui B, Kotlikoff MI, Yanagawa Y, Aujard F, Hökfelt T, Hurd YL, Harkany T.
Secretagogin is a Ca2+-binding protein identifying prospective extended amygdala neurons in the developing mammalian telencephalon.
Eur J Neurosci. 2010 31(12):2166-77.
PubMed: 20529129 DOI: 10.1111/j.1460-9568.2010.07275.x
120 Furusato B, Mohamed A, Uhlén M, Rhim JS.
CXCR4 and cancer.
Pathol Int. 2010 60(7):497-505.
PubMed: 20594270 DOI: 10.1111/j.1440-1827.2010.02548.x
119 Bourbeillon J, Orchard S, Benhar I, Borrebaeck C, de Daruvar A, Dübel S, Frank R, Gibson F, Gloriam D, Haslam N, Hiltker T, Humphrey-Smith I, Hust M, Juncker D, Koegl M, Konthur Z, Korn B, Krobitsch S, Muyldermans S, Nygren PA, Palcy S, Polic B, Rodriguez H, Sawyer A, Schlapshy M, Snyder M, Stoevesandt O, Taussig MJ, Templin M, Uhlen M, van der Maarel S, Wingren C, Hermjakob H, Sherman D.
Minimum information about a protein affinity reagent (MIAPAR).
Nat Biotechnol. 2010 28(7):650-3.
PubMed: 20622827 DOI: 10.1038/nbt0710-650
118 Gardberg M, Talvinen K, Kaipio K, Iljin K, Kampf C, Uhlen M, Carpén O.
Characterization of Diaphanous-related formin FMNL2 in human tissues.
BMC Cell Biol. 2010 11:55.
PubMed: 20633255 DOI: 10.1186/1471-2121-11-55
117 Uhlen M, Oksvold P, Fagerberg L, Lundberg E, Jonasson K, Forsberg M, Zwahlen M, Kampf C, Wester K, Hober S, Wernerus H, Björling L, Ponten F.
Towards a knowledge-based Human Protein Atlas.
Nat Biotechnol. 2010 28(12):1248-50.
PubMed: 21139605 DOI: 10.1038/nbt1210-1248
116 Lundberg E, Fagerberg L, Klevebring D, Matic I, Geiger T, Cox J, Algenäs C, Lundeberg J, Mann M, Uhlen M.
Defining the transcriptome and proteome in three functionally different human cell lines.
Mol Syst Biol. 2010 6:450.
PubMed: 21179022 DOI: 10.1038/msb.2010.106
115 Gry M, Oksvold P, Pontén F, Uhlén M.
Tissue-specific protein expression in human cells, tissues and organs.
J Proteomics Bioinform 2010 3(10):294-301.
DOI: 10.4172/jpb.1000153
114 Agnarsdóttir M, Sooman L, Bolander A, Strömberg S, Rexhepaj E, Bergqvist M, Ponten F, Gallagher W, Lennartsson J, Ekman S, Uhlen M, Hedstrand H.
SOX10 expression in superficial spreading and nodular malignant melanomas.
Melanoma Res. 2010 20(6):468-78.
PubMed: 20890226 DOI: 10.1097/CMR.0b013e3283403ccd
113 Brennan DJ, O'Connor DP, Rexhepaj E, Ponten F, Gallagher WM.
Antibody-based proteomics: fast-tracking molecular diagnostics in oncology.
Nat Rev Cancer. 2010 10(9):605-17.
PubMed: 20720569 DOI: 10.1038/nrc2902
112 Ehlén A, Brennan DJ, Nodin B, O'Connor DP, Eberhard J, Alvarado-Kristensson M, Jeffrey IB, Manjer J, Brändstedt J, Uhlén M, Pontén F, Jirström K.
Expression of the RNA-binding protein RBM3 is associated with a favourable prognosis and cisplatin sensitivity in epithelial ovarian cancer.
J Transl Med. 2010 8:78.
PubMed: 20727170 DOI: 10.1186/1479-5876-8-78
111 Lindskog C, Asplund A, Engkvist M, Uhlén M, Korsgren O, Pontén F.
Antibody-based proteomics for discovery and exploration of proteins expressed in pancreatic islets.
Discov Med. 2010 9(49):565-78.
PubMed: 20587347
110 Blokzijl A, Friedman M, Pontén F, Landegren U.
Profiling protein expression and interactions: proximity ligation as a tool for personalized medicine.
J Intern Med. 2010 268(3):232-45.
PubMed: 20695973 DOI: 10.1111/j.1365-2796.2010.02256.x
109 Ryan D, Rafferty M, Hegarty S, O'Leary P, Faller W, Gremel G, Bergqvist M, Agnarsdottir M, Strömberg S, Kampf C, Pontén F, Millikan RC, Dervan PA, Gallagher WM.
Topoisomerase I amplification in melanoma is associated with more advanced tumours and poor prognosis.
Pigment Cell Melanoma Res. 2010 23(4):542-53.
PubMed: 20465595 DOI: 10.1111/j.1755-148X.2010.00720.x
108 Brennan DJ, Brändstedt J, Rexhepaj E, Foley M, Pontén F, Uhlén M, Gallagher WM, O'Connor DP, O'Herlihy C, Jirstrom K.
Tumour-specific HMG-CoAR is an independent predictor of recurrence free survival in epithelial ovarian cancer.
BMC Cancer. 2010 10:125.
PubMed: 20359358 DOI: 10.1186/1471-2407-10-125
107 Nord H, Segersten U, Sandgren J, Wester K, Busch C, Menzel U, Komorowski J, Dumanski JP, Malmström PU, Díaz de Ståhl T.
Focal amplifications are associated with high grade and recurrences in stage Ta bladder carcinoma.
Int J Cancer. 2010 126(6):1390-402.
PubMed: 19821490 DOI: 10.1002/ijc.24954
106 Borsics T, Lundberg E, Geerts D, Koomoa DL, Koster J, Wester K, Bachmann AS.
Subcellular distribution and expression of prenylated Rab acceptor 1 domain family, member 2 (PRAF2) in malignant glioma: Influence on cell survival and migration.
Cancer Sci. 2010 101(7):1624-31.
PubMed: 20412121 DOI: 10.1111/j.1349-7006.2010.01570.x
105 Lundberg E, Uhlén M.
Creation of an antibody-based subcellular protein atlas.
Proteomics. 2010 10(22):3984-96.
PubMed: 20648481 DOI: 10.1002/pmic.201000125
104 Schwenk JM, Igel U, Neiman M, Langen H, Becker C, Bjartell A, Ponten F, Wiklund F, Grönberg H, Nilsson P, Uhlen M.
Toward next generation plasma profiling via heat-induced epitope retrieval and array-based assays.
Mol Cell Proteomics. 2010 9(11):2497-507.
PubMed: 20682762 DOI: 10.1074/mcp.M110.001560
103 Rockberg J, Löfblom J, Hjelm B, Ståhl S, Uhlén M.
Epitope mapping using gram-positive surface display.
Curr Protoc Immunol. 2010 Chapter 9:Unit9.9.
PubMed: 20814943 DOI: 10.1002/0471142735.im0909s90
102 Tassidis H, Brokken LJ, Jirström K, Ehrnström R, Pontén F, Ulmert D, Bjartell A, Härkönen P, Wingren AG.
Immunohistochemical detection of tyrosine phosphatase SHP-1 predicts outcome after radical prostatectomy for localized prostate cancer.
Int J Cancer. 2010 126(10):2296-307.
PubMed: 19795453 DOI: 10.1002/ijc.24917
101 Holgersson G, Ekman S, Reizenstein J, Bergqvist M, Pontén F, Uhlén M, Magnusson K, Jonnalagadda P, Asplund A, Strömberg S, Linder A, Blomquist E, Liljeholm M, Lödén B, Hellström K, Bergström S.
Molecular profiling using tissue microarrays as a tool to identify predictive biomarkers in laryngeal cancer treated with radiotherapy.
Cancer Genomics Proteomics 2010 7(1):1-7.
PubMed: 20181625
100 Tegel H, Tourle S, Ottosson J, Persson A.
Increased levels of recombinant human proteins with the Escherichia coli strain Rosetta(DE3).
Protein Expr Purif. 2010 69(2):159-67.
PubMed: 19733669 DOI: 10.1016/j.pep.2009.08.017
99 Fagerberg L, Jonasson K, von Heijne G, Uhlén M, Berglund L.
Prediction of the human membrane proteome.
Proteomics. 2010 10(6):1141-9.
PubMed: 20175080 DOI: 10.1002/pmic.200900258
98 Schwenk JM, Igel U, Kato BS, Nicholson G, Karpe F, Uhlén M, Nilsson P.
Comparative protein profiling of serum and plasma using an antibody suspension bead array approach.
Proteomics. 2010 10(3):532-40.
PubMed: 19953555 DOI: 10.1002/pmic.200900657
97 Stadler C, Skogs M, Brismar H, Uhlén M, Lundberg E.
A single fixation protocol for proteome-wide immunofluorescence localization studies.
J Proteomics. 2010 73(6):1067-78.
PubMed: 19896565 DOI: 10.1016/j.jprot.2009.10.012
96 Gloriam DE, Orchard S, Bertinetti D, Björling E, Bongcam-Rudloff E, Borrebaeck CA, Bourbeillon J, Bradbury AR, de Daruvar A, Dübel S, Frank R, Gibson TJ, Gold L, Haslam N, Herberg FW, Hiltke T, Hoheisel JD, Kerrien S, Koegl M, Konthur Z, Korn B, Landegren U, Montecchi-Palazzi L, Palcy S, Rodriguez H, Schweinsberg S, Sievert V, Stoevesandt O, Taussig MJ, Ueffing M, Uhlén M, van der Maarel S, Wingren C, Woollard P, Sherman DJ, Hermjakob H.
A community standard format for the representation of protein affinity reagents.
Mol Cell Proteomics. 2010 9(1):1-10.
PubMed: 19674966 DOI: 10.1074/mcp.M900185-MCP200
95 Szigyarto CA, Sibbons P, Williams G, Uhlen M, Metcalfe SM.
The E3 ligase axotrophin/MARCH-7: protein expression profiling of human tissues reveals links to adult stem cells.
J Histochem Cytochem. 2010 58(4):301-8.
PubMed: 19901269 DOI: 10.1369/jhc.2009.954420
94 Hjelm B, Fernández CD, Löfblom J, Ståhl S, Johannesson H, Rockberg J, Uhlén M.
Exploring epitopes of antibodies toward the human tryptophanyl-tRNA synthetase.
N Biotechnol. 2010 27(2):129-37.
PubMed: 19913117 DOI: 10.1016/j.nbt.2009.11.001
93 Paavilainen L, Edvinsson A, Asplund A, Hober S, Kampf C, Pontén F, Wester K.
The impact of tissue fixatives on morphology and antibody-based protein profiling in tissues and cells.
J Histochem Cytochem. 2010 58(3):237-46.
PubMed: 19901271 DOI: 10.1369/jhc.2009.954321
92 Tchougounova E, Jiang Y, Bråsäter D, Lindberg N, Kastemar M, Asplund A, Westermark B, Uhrbom L.
Sox5 can suppress platelet-derived growth factor B-induced glioma development in Ink4a-deficient mice through induction of acute cellular senescence.
Oncogene. 2009 28(12):1537-48.
PubMed: 19219070 DOI: 10.1038/onc.2009.9
91 Oberg F, Haseeb A, Ahnfelt M, Pontén F, Westermark B, El-Obeid A.
Herbal melanin activates TLR4/NF-kappaB signaling pathway.
Phytomedicine. 2009 16(5):477-84.
PubMed: 19103478 DOI: 10.1016/j.phymed.2008.10.008
90 Apweiler R, Aslanidis C, Deufel T, Gerstner A, Hansen J, Hochstrasser D, Kellner R, Kubicek M, Lottspeich F, Maser E, Mewes HW, Meyer HE, Müllner S, Mutter W, Neumaier M, Nollau P, Nothwang HG, Ponten F, Radbruch A, Reinert K, Rothe G, Stockinger H, Tárnok A, Taussig MJ, Thiel A, Thiery J, Ueffing M, Valet G, Vandekerckhove J, Wagener C, Wagner O, Schmitz G.
Approaching clinical proteomics: current state and future fields of application in cellular proteomics.
Cytometry A. 2009 75(10):816-32.
PubMed: 19739086 DOI: 10.1002/cyto.a.20779
89 Leja J, Essaghir A, Essand M, Wester K, Oberg K, Tötterman TH, Lloyd R, Vasmatzis G, Demoulin JB, Giandomenico V.
Novel markers for enterochromaffin cells and gastrointestinal neuroendocrine carcinomas.
Mod Pathol. 2009 22(2):261-72.
PubMed: 18953328 DOI: 10.1038/modpathol.2008.174
88 Qu M, Aronica E, Boer K, Fällmar D, Kumlien E, Nistér M, Wester K, Pontén F, Smits A.
DLG3/SAP102 protein expression in malformations of cortical development: a study of human epileptic cortex by tissue microarray.
Epilepsy Res. 2009 84(1):33-41.
PubMed: 19167192 DOI: 10.1016/j.eplepsyres.2008.12.004
87 Newberg JY, Li J, Rao A, Pontén F, Uhlén M, Lundberg E, Murphy RF.
Automated Analysis of Human Protein Atlas Immunofluorescence Images.
Proc IEEE Int Symp Biomed Imaging. 2009 5193229:1023-1026.
PubMed: 20628548 DOI: 10.1109/ISBI.2009.5193229
86 Gaber A, Johansson M, Stenman UH, Hotakainen K, Pontén F, Glimelius B, Bjartell A, Jirström K, Birgisson H.
High expression of tumour-associated trypsin inhibitor correlates with liver metastasis and poor prognosis in colorectal cancer.
Br J Cancer. 2009 100(10):1540-8.
PubMed: 19384300 DOI: 10.1038/sj.bjc.6605047
85 Paulsson J, Sjöblom T, Micke P, Pontén F, Landberg G, Heldin CH, Bergh J, Brennan DJ, Jirström K, Ostman A.
Prognostic significance of stromal platelet-derived growth factor beta-receptor expression in human breast cancer.
Am J Pathol. 2009 175(1):334-41.
PubMed: 19498003 DOI: 10.2353/ajpath.2009.081030
84 Apweiler R, Aslanidis C, Deufel T, Gerstner A, Hansen J, Hochstrasser D, Kellner R, Kubicek M, Lottspeich F, Maser E, Mewes HW, Meyer HE, Müllner S, Mutter W, Neumaier M, Nollau P, Nothwang HG, Ponten F, Radbruch A, Reinert K, Rothe G, Stockinger H, Tarnok A, Taussig MJ, Thiel A, Thiery J, Ueffing M, Valet G, Vandekerckhove J, Verhuven W, Wagener C, Wagner O, Schmitz G.
Approaching clinical proteomics: current state and future fields of application in fluid proteomics.
Clin Chem Lab Med. 2009 47(6):724-44.
PubMed: 19527139 DOI: 10.1515/CCLM.2009.167
83 Ghanipour A, Jirström K, Pontén F, Glimelius B, Påhlman L, Birgisson H.
The prognostic significance of tryptophanyl-tRNA synthetase in colorectal cancer.
Cancer Epidemiol Biomarkers Prev. 2009 18(11):2949-56.
PubMed: 19900940 DOI: 10.1158/1055-9965.EPI-09-0456
82 Markljung E, Jiang L, Jaffe JD, Mikkelsen TS, Wallerman O, Larhammar M, Zhang X, Wang L, Saenz-Vash V, Gnirke A, Lindroth AM, Barrés R, Yan J, Strömberg S, De S, Pontén F, Lander ES, Carr SA, Zierath JR, Kullander K, Wadelius C, Lindblad-Toh K, Andersson G, Hjälm G, Andersson L.
ZBED6, a novel transcription factor derived from a domesticated DNA transposon regulates IGF2 expression and muscle growth.
PLoS Biol. 2009 7(12):e1000256.
PubMed: 20016685 DOI: 10.1371/journal.pbio.1000256
81 Rimini R, Schwenk JM, Sundberg M, Sjöberg R, Klevebring D, Gry M, Uhlén M, Nilsson P.
Validation of serum protein profiles by a dual antibody array approach.
J Proteomics 2009 73(2):252-66.
PubMed: 19781670 DOI: 10.1016/j.jprot.2009.09.009
80 Joensson HN, Samuels ML, Brouzes ER, Medkova M, Uhlén M, Link DR, Andersson-Svahn H.
Detection and analysis of low-abundance cell-surface biomarkers using enzymatic amplification in microfluidic droplets.
Angew Chem Int Ed Engl. 2009 48(14):2518-21.
PubMed: 19235824 DOI: 10.1002/anie.200804326
79 Aebersold R, Auffray C, Baney E, Barillot E, Brazma A, Brett C, Brunak S, Butte A, Califano A, Celis J, Cufer T, Ferrell J, Galas D, Gallahan D, Gatenby R, Goldbeter A, Hace N, Henney A, Hood L, Iyengar R, Jackson V, Kallioniemi O, Klingmüller U, Kolar P, Kolch W, Kyriakopoulou C, Laplace F, Lehrach H, Marcus F, Matrisian L, Nolan G, Pelkmans L, Potti A, Sander C, Seljak M, Singer D, Sorger P, Stunnenberg H, Superti-Furga G, Uhlen M, Vidal M, Weinstein J, Wigle D, Williams M, Wolkenhauer O, Zhivotovsky B, Zinovyev A, Zupan B.
Report on EU-USA workshop: how systems biology can advance cancer research (27 October 2008).
Mol Oncol. 2009 3(1):9-17.
PubMed: 19383362 DOI: 10.1016/j.molonc.2008.11.003
78 Rockberg J, Schwenk JM, Uhlén M.
Discovery of epitopes for targeting the human epidermal growth factor receptor 2 (HER2) with antibodies.
Mol Oncol. 2009 3(3):238-47.
PubMed: 19393584 DOI: 10.1016/j.molonc.2009.01.003
77 Gry M, Rimini R, Strömberg S, Asplund A, Pontén F, Uhlén M, Nilsson P.
Correlations between RNA and protein expression profiles in 23 human cell lines.
BMC Genomics. 2009 10:365.
PubMed: 19660143 DOI: 10.1186/1471-2164-10-365
76 Jögi A, Brennan DJ, Rydén L, Magnusson K, Fernö M, Stål O, Borgquist S, Uhlen M, Landberg G, Påhlman S, Pontén F, Jirström K.
Nuclear expression of the RNA-binding protein RBM3 is associated with an improved clinical outcome in breast cancer.
Mod Pathol. 2009 22(12):1564-74.
PubMed: 19734850 DOI: 10.1038/modpathol.2009.124
75 Ahlin G, Hilgendorf C, Karlsson J, Szigyarto CA, Uhlén M, Artursson P.
Endogenous gene and protein expression of drug-transporting proteins in cell lines routinely used in drug discovery programs.
Drug Metab Dispos. 2009 37(12):2275-83.
PubMed: 19741037 DOI: 10.1124/dmd.109.028654
74 Vashisht AA, Zumbrennen KB, Huang X, Powers DN, Durazo A, Sun D, Bhaskaran N, Persson A, Uhlen M, Sangfelt O, Spruck C, Leibold EA, Wohlschlegel JA.
Control of iron homeostasis by an iron-regulated ubiquitin ligase.
Science. 2009 326(5953):718-21.
PubMed: 19762596 DOI: 10.1126/science.1176333
73 Mulder J, Zilberter M, Spence L, Tortoriello G, Uhlén M, Yanagawa Y, Aujard F, Hökfelt T, Harkany T.
Secretagogin is a Ca2+-binding protein specifying subpopulations of telencephalic neurons.
Proc Natl Acad Sci U S A. 2009 106(52):22492-7.
PubMed: 20018755 DOI: 10.1073/pnas.0912484106
72 Segersten MU, Edlund EK, Micke P, de la Torre M, Hamberg H, Edvinsson AE, Andersson SE, Malmström PU, Wester HK.
A novel strategy based on histological protein profiling in-silico for identifying potential biomarkers in urinary bladder cancer.
BJU Int. 2009 104(11):1780-5.
PubMed: 19522865 DOI: 10.1111/j.1464-410X.2009.08674.x
71 Pontén F, Gry M, Fagerberg L, Lundberg E, Asplund A, Berglund L, Oksvold P, Björling E, Hober S, Kampf C, Navani S, Nilsson P, Ottosson J, Persson A, Wernérus H, Wester K, Uhlén M.
A global view of protein expression in human cells, tissues, and organs.
Mol Syst Biol. 2009 5:337.
PubMed: 20029370 DOI: 10.1038/msb.2009.93
70 Rockberg J, Uhlén M.
Prediction of antibody response using recombinant human protein fragments as antigen.
Protein Sci. 2009 18(11):2346-55.
PubMed: 19760667 DOI: 10.1002/pro.245
69 Rodriguez H, Snyder M, Uhlén M, Andrews P, Beavis R, Borchers C, Chalkley RJ, Cho SY, Cottingham K, Dunn M, Dylag T, Edgar R, Hare P, Heck AJ, Hirsch RF, Kennedy K, Kolar P, Kraus HJ, Mallick P, Nesvizhskii A, Ping P, Pontén F, Yang L, Yates JR, Stein SE, Hermjakob H, Kinsinger CR, Apweiler R.
Recommendations from the 2008 International Summit on Proteomics Data Release and Sharing Policy: the Amsterdam principles.
J Proteome Res. 2009 8(7):3689-92.
PubMed: 19344107 DOI: 10.1021/pr900023z
68 Alimohammadi M, Dubois N, Sköldberg F, Hallgren A, Tardivel I, Hedstrand H, Haavik J, Husebye ES, Gustafsson J, Rorsman F, Meloni A, Janson C, Vialettes B, Kajosaari M, Egner W, Sargur R, Pontén F, Amoura Z, Grimfeld A, De Luca F, Betterle C, Perheentupa J, Kämpe O, Carel JC.
Pulmonary autoimmunity as a feature of autoimmune polyendocrine syndrome type 1 and identification of KCNRG as a bronchial autoantigen.
Proc Natl Acad Sci U S A. 2009 106(11):4396-401.
PubMed: 19251657 DOI: 10.1073/pnas.0809986106
67 Strömberg S, Agnarsdóttir M, Magnusson K, Rexhepaj E, Bolander A, Lundberg E, Asplund A, Ryan D, Rafferty M, Gallagher WM, Uhlen M, Bergqvist M, Ponten F.
Selective expression of Syntaxin-7 protein in benign melanocytes and malignant melanoma.
J Proteome Res. 2009 8(4):1639-46.
PubMed: 19714869 DOI: 10.1021/pr800745e
66 Estigoy CB, Pontén F, Odeberg J, Herbert B, Guilhaus M, Charleston M, Ho JWK, Cameron D, dos Remedios CG.
Intercalated discs: multiple proteins perform multiple functions in non-failing and failing human hearts.
Biophys Rev 2009 1:43-49.
DOI: 10.1007/s12551-008-0007-y
65 Wensman H, Göransson H, Leuchowius KJ, Strömberg S, Pontén F, Isaksson A, Rutteman GR, Heldin NE, Pejler G, Hellmén E.
Extensive expression of craniofacial related homeobox genes in canine mammary sarcomas.
Breast Cancer Res Treat. 2009 118(2):333-43.
PubMed: 19048371 DOI: 10.1007/s10549-008-0243-7
64 Mulder J, Björling E, Jonasson K, Wernérus H, Hober S, Hökfelt T, Uhlén M.
Tissue profiling of the mammalian central nervous system using human antibody-based proteomics.
Mol Cell Proteomics. 2009 8(7):1612-22.
PubMed: 19351664 DOI: 10.1074/mcp.M800539-MCP200
63 Larsson K, Eriksson C, Schwenk JM, Berglund L, Wester K, Uhlén M, Hober S, Wernérus H.
Characterization of PrEST-based antibodies towards human Cytokeratin-17.
J Immunol Methods. 2009 342(1-2):20-32.
PubMed: 19108777 DOI: 10.1016/j.jim.2008.11.013
62 Steen J, Ramström M, Uhlén M, Hober S, Ottosson J.
Automated sample preparation method for mass spectrometry analysis on recombinant proteins.
J Chromatogr A. 2009 1216(20):4457-64.
PubMed: 19345368 DOI: 10.1016/j.chroma.2009.03.041
61 Tegel H, Steen J, Konrad A, Nikdin H, Pettersson K, Stenvall M, Tourle S, Wrethagen U, Xu L, Yderland L, Uhlén M, Hober S, Ottosson J.
High-throughput protein production - lessons from scaling up from 10 to 288 recombinant proteins per week.
Biotechnol J. 2009 4(1):51-7.
PubMed: 19039781 DOI: 10.1002/biot.200800183
60 Ramström M, Zuberovic A, Grönwall C, Hanrieder J, Bergquist J, Hober S.
Development of affinity columns for the removal of high-abundance proteins in cerebrospinal fluid.
Biotechnol Appl Biochem. 2009 52(Pt 2):159-66.
PubMed: 18412540 DOI: 10.1042/BA20080015
59 Koomoa DL, Go RC, Wester K, Bachmann AS.
Expression profile of PRAF2 in the human brain and enrichment in synaptic vesicles.
Neurosci Lett. 2008 436(2):171-6.
PubMed: 18395978 DOI: 10.1016/j.neulet.2008.03.030
58 Bolander A, Agnarsdóttir M, Strömberg S, Ponten F, Hesselius P, Uhlen M, Bergqvist M.
The protein expression of TRP-1 and galectin-1 in cutaneous malignant melanomas.
Cancer Genomics Proteomics 2008 5(6):293-300.
PubMed: 19287070
57 Borgquist S, Djerbi S, Pontén F, Anagnostaki L, Goldman M, Gaber A, Manjer J, Landberg G, Jirström K.
HMG-CoA reductase expression in breast cancer is associated with a less aggressive phenotype and influenced by anthropometric factors.
Int J Cancer. 2008 123(5):1146-53.
PubMed: 18528862 DOI: 10.1002/ijc.23597
56 Borgquist S, Jögi A, Pontén F, Rydén L, Brennan DJ, Jirström K.
Prognostic impact of tumour-specific HMG-CoA reductase expression in primary breast cancer.
Breast Cancer Res. 2008 10(5):R79.
PubMed: 18808688 DOI: 10.1186/bcr2146
55 Asplund A, Gry Björklund M, Sundquist C, Strömberg S, Edlund K, Ostman A, Nilsson P, Pontén F, Lundeberg J.
Expression profiling of microdissected cell populations selected from basal cells in normal epidermis and basal cell carcinoma.
Br J Dermatol. 2008 158(3):527-38.
PubMed: 18241271 DOI: 10.1111/j.1365-2133.2007.08418.x
54 Uhlen M.
A new era for proteomics research?
Genome Biol. 2008 9(11):325.
PubMed: 19014405 DOI: 10.1186/gb-2008-9-11-325
53 Uhlen M, Gräslund S, Sundström M.
A pilot project to generate affinity reagents to human proteins.
Nat Methods. 2008 5(10):854-5.
PubMed: 18825127 DOI: 10.1038/nmeth1008-854
52 Pontén F, Jirström K, Uhlen M.
The Human Protein Atlas - a tool for pathology.
J Pathol. 2008 216(4):387-93.
PubMed: 18853439 DOI: 10.1002/path.2440
51 Rockberg J, Löfblom J, Hjelm B, Uhlén M, Ståhl S.
Epitope mapping of antibodies using bacterial surface display.
Nat Methods. 2008 5(12):1039-45.
PubMed: 19029907 DOI: 10.1038/nmeth.1272
50 Berglund L, Björling E, Oksvold P, Fagerberg L, Asplund A, Szigyarto CA, Persson A, Ottosson J, Wernérus H, Nilsson P, Lundberg E, Sivertsson A, Navani S, Wester K, Kampf C, Hober S, Pontén F, Uhlén M.
A genecentric Human Protein Atlas for expression profiles based on antibodies.
Mol Cell Proteomics. 2008 7(10):2019-27.
PubMed: 18669619 DOI: 10.1074/mcp.R800013-MCP200
49 Björling E, Uhlén M.
Antibodypedia, a portal for sharing antibody and antigen validation data.
Mol Cell Proteomics. 2008 7(10):2028-37.
PubMed: 18667413 DOI: 10.1074/mcp.M800264-MCP200
48 Uhlén M, Hober S.
Generation and validation of affinity reagents on a proteome-wide level.
J Mol Recognit. 2008 22(2):57-64.
PubMed: 18546091 DOI: 10.1002/jmr.891
47 Lundberg E, Gry M, Oksvold P, Kononen J, Andersson-Svahn H, Pontén F, Uhlén M, Asplund A.
The correlation between cellular size and protein expression levels - normalization for global protein profiling.
J Proteomics. 2008 71(4):448-60.
PubMed: 18656560 DOI: 10.1016/j.jprot.2008.06.014
46 Schwenk JM, Gry M, Rimini R, Uhlén M, Nilsson P.
Antibody suspension bead arrays within serum proteomics.
J Proteome Res. 2008 7(8):3168-79.
PubMed: 18588325 DOI: 10.1021/pr700890b
45 Berglund L, Björling E, Jonasson K, Rockberg J, Fagerberg L, Al-Khalili Szigyarto C, Sivertsson A, Uhlén M.
A whole-genome bioinformatics approach to selection of antigens for systematic antibody generation.
Proteomics. 2008 8(14):2832-9.
PubMed: 18655051 DOI: 10.1002/pmic.200800203
44 Uhlén M.
Affinity as a tool in life science.
Biotechniques. 2008 44(5):649-54.
PubMed: 18474040 DOI: 10.2144/000112803
43 Paavilainen L, Wernérus H, Nilsson P, Uhlén M, Hober S, Wester K, Pontén F.
Evaluation of monospecific antibodies: a comparison study with commercial analogs using immunohistochemistry on tissue microarrays.
Appl Immunohistochem Mol Morphol. 2008 16(5):493-502.
PubMed: 18685494 DOI: 10.1097/PAI.0b013e31817c645e
42 Berglund L, Andrade J, Odeberg J, Uhlén M.
The epitope space of the human proteome.
Protein Sci. 2008 17(4):606-13.
PubMed: 18359855 DOI: 10.1110/ps.073347208
41 Barbe L, Lundberg E, Oksvold P, Stenius A, Lewin E, Björling E, Asplund A, Pontén F, Brismar H, Uhlén M, Andersson-Svahn H.
Toward a confocal subcellular atlas of the human proteome.
Mol Cell Proteomics. 2008 7(3):499-508.
PubMed: 18029348 DOI: 10.1074/mcp.M700325-MCP200
40 Björling E, Lindskog C, Oksvold P, Linné J, Kampf C, Hober S, Uhlén M, Pontén F.
A web-based tool for in silico biomarker discovery based on tissue-specific protein profiles in normal and cancer tissues.
Mol Cell Proteomics. 2008 7(5):825-44.
PubMed: 17913849 DOI: 10.1074/mcp.M700411-MCP200
39 Hober S, Uhlén M.
Human protein atlas and the use of microarray technologies.
Curr Opin Biotechnol. 2008 19(1):30-5.
PubMed: 18187316 DOI: 10.1016/j.copbio.2007.11.006
38 Mathivanan S, Ahmed M, Ahn NG, Alexandre H, Amanchy R, Andrews PC, Bader JS, Balgley BM, Bantscheff M, Bennett KL, Björling E, Blagoev B, Bose R, Brahmachari SK, Burlingame AS, Bustelo XR, Cagney G, Cantin GT, Cardasis HL, Celis JE, Chaerkady R, Chu F, Cole PA, Costello CE, Cotter RJ, Crockett D, DeLany JP, De Marzo AM, DeSouza LV, Deutsch EW, Dransfield E, Drewes G, Droit A, Dunn MJ, Elenitoba-Johnson K, Ewing RM, Van Eyk J, Faca V, Falkner J, Fang X, Fenselau C, Figeys D, Gagné P, Gelfi C, Gevaert K, Gimble JM, Gnad F, Goel R, Gromov P, Hanash SM, Hancock WS, Harsha HC, Hart G, Hays F, He F, Hebbar P, Helsens K, Hermeking H, Hide W, Hjernø K, Hochstrasser DF, Hofmann O, Horn DM, Hruban RH, Ibarrola N, James P, Jensen ON, Jensen PH, Jung P, Kandasamy K, Kheterpal I, Kikuno RF, Korf U, Körner R, Kuster B, Kwon MS, Lee HJ, Lee YJ, Lefevre M, Lehvaslaiho M, Lescuyer P, Levander F, Lim MS, Löbke C, Loo JA, Mann M, Martens L, Martinez-Heredia J, McComb M, McRedmond J, Mehrle A, Menon R, Miller CA, Mischak H, Mohan SS, Mohmood R, Molina H, Moran MF, Morgan JD, Moritz R, Morzel M, Muddiman DC, Nalli A, Navarro JD, Neubert TA, Ohara O, Oliva R, Omenn GS, Oyama M, Paik YK, Pennington K, Pepperkok R, Periaswamy B, Petricoin EF, Poirier GG, Prasad TS, Purvine SO, Rahiman BA, Ramachandran P, Ramachandra YL, Rice RH, Rick J, Ronnholm RH, Salonen J, Sanchez JC, Sayd T, Seshi B, Shankari K, Sheng SJ, Shetty V, Shivakumar K, Simpson RJ, Sirdeshmukh R, Siu KW, Smith JC, Smith RD, States DJ, Sugano S, Sullivan M, Superti-Furga G, Takatalo M, Thongboonkerd V, Trinidad JC, Uhlen M, Vandekerckhove J, Vasilescu J, Veenstra TD, Vidal-Taboada JM, Vihinen M, Wait R, Wang X, Wiemann S, Wu B, Xu T, Yates JR, Zhong J, Zhou M, Zhu Y, Zurbig P, Pandey A.
Human Proteinpedia enables sharing of human protein data.
Nat Biotechnol. 2008 26(2):164-7.
PubMed: 18259167 DOI: 10.1038/nbt0208-164
37 Nestor M, Ekberg T, Dring J, van Dongen GA, Wester K, Tolmachev V, Anniko M.
Quantification of CD44v6 and EGFR expression in head and neck squamous cell carcinomas using a single-dose radioimmunoassay.
Tumour Biol. 2007 28(5):253-63.
PubMed: 17992053 DOI: 10.1159/000110898
36 Sundqvist G, Stenvall M, Berglund H, Ottosson J, Brumer H.
A general, robust method for the quality control of intact proteins using LC-ESI-MS.
J Chromatogr B Analyt Technol Biomed Life Sci. 2007 852(1-2):188-94.
PubMed: 17267305 DOI: 10.1016/j.jchromb.2007.01.011
35 Alm T, Steen J, Ottosson J, Hober S.
High-throughput protein purification under denaturating conditions by the use of cation exchange chromatography.
Biotechnol J. 2007 2(6):709-16.
PubMed: 17492715 DOI: 10.1002/biot.200700060
34 Renberg B, Nordin J, Merca A, Uhlén M, Feldwisch J, Nygren PA, Karlström AE.
Affibody molecules in protein capture microarrays: evaluation of multidomain ligands and different detection formats.
J Proteome Res. 2007 6(1):171-9.
PubMed: 17203961 DOI: 10.1021/pr060316r
33 Mulder J, Wernérus H, Shi TJ, Pontén F, Hober S, Uhlén M, Hökfelt T.
Systematically generated antibodies against human gene products: high throughput screening on sections from the rat nervous system.
Neuroscience. 2007 146(4):1689-703.
PubMed: 17478047 DOI: 10.1016/j.neuroscience.2007.02.054
32 Orchard S, Heck A, Uhlen M, Ping P.
Publication Committee meeting. HUPO 5th annual World Congress. Long Beach, CA, USA 30 October 2006.
Proteomics. 2007 7(7):1009-11.
PubMed: 17340644 DOI: 10.1002/pmic.200700015
31 Falk R, Ramström M, Ståhl S, Hober S.
Approaches for systematic proteome exploration.
Biomol Eng. 2007 24(2):155-68.
PubMed: 17376740 DOI: 10.1016/j.bioeng.2007.01.001
30 Strömberg S, Björklund MG, Asplund C, Sköllermo A, Persson A, Wester K, Kampf C, Nilsson P, Andersson AC, Uhlen M, Kononen J, Ponten F, Asplund A.
A high-throughput strategy for protein profiling in cell microarrays using automated image analysis.
Proteomics. 2007 7(13):2142-50.
PubMed: 17549799 DOI: 10.1002/pmic.200700199
29 Uhlen M.
Mapping the human proteome using antibodies
Mol Cell Proteomics 2007 6(8):1455-6.
PubMed: 17703056
28 Bengtsson S, Krogh M, Szigyarto CA, Uhlen M, Schedvins K, Silfverswärd C, Linder S, Auer G, Alaiya A, James P.
Large-scale proteomics analysis of human ovarian cancer for biomarkers.
J Proteome Res. 2007 6(4):1440-50.
PubMed: 17315909 DOI: 10.1021/pr060593y
27 Lofblom J, Kronqvist N, Uhlen M, Stahl S, Wernerus H.
Optimization of electroporation-mediated transformation: Staphylococcus carnosus as model organism.
J Appl Microbiol 2007 102(3):736-47.
PubMed: 17309623 DOI: 10.1111/j.1365-2672.2006.03127.x
26 Lerner M, Corcoran M, Cepeda D, Nielsen ML, Zubarev R, Pontén F, Uhlén M, Hober S, Grandér D, Sangfelt O.
The RBCC gene RFP2 (Leu5) encodes a novel transmembrane E3 ubiquitin ligase involved in ERAD.
Mol Biol Cell. 2007 18(5):1670-82.
PubMed: 17314412 DOI: 10.1091/mbc.E06-03-0248
25 Lundberg E, Sundberg M, Gräslund T, Uhlén M, Svahn HA.
A novel method for reproducible fluorescent labeling of small amounts of antibodies on solid phase.
J Immunol Methods. 2007 322(1-2):40-9.
PubMed: 17383674 DOI: 10.1016/j.jim.2007.01.023
24 Patrakka J, Xiao Z, Nukui M, Takemoto M, He L, Oddsson A, Perisic L, Kaukinen A, Szigyarto CA, Uhlén M, Jalanko H, Betsholtz C, Tryggvason K.
Expression and subcellular distribution of novel glomerulus-associated proteins dendrin, ehd3, sh2d4a, plekhh2, and 2310066E14Rik.
J Am Soc Nephrol. 2007 18(3):689-97.
PubMed: 17251388 DOI: 10.1681/ASN.2006060675
23 Taussig MJ, Stoevesandt O, Borrebaeck CA, Bradbury AR, Cahill D, Cambillau C, de Daruvar A, Dubel S, Eichler J, Frank R, Gibson TJ, Gloriam D, Gold L, Herberg FW, Hermjakob H, Hoheisel JD, Joos TO, Kallioniemi O, Koegll M, Konthur Z, Korn B, Kremmer E, Krobitsch S, Landegren U, van der Maarel S, McCafferty J, Muyldermans S, Nygren PA, Palcy S, Pluckthun A, Polic B, Przybylski M, Saviranta P, Sawyer A, Sherman DJ, Skerra A, Templin M, Ueffing M, Uhlen M.
ProteomeBinders: planning a European resource of affinity reagents for analysis of the human proteome.
Nature Methods 2007 4(1):13-7.
PubMed: 17195019 DOI: 10.1038/nmeth0107-13
22 Schwenk JM, Lindberg J, Sundberg M, Uhlén M, Nilsson P.
Determination of binding specificities in highly multiplexed bead-based assays for antibody proteomics.
Mol Cell Proteomics. 2007 6(1):125-32.
PubMed: 17060675 DOI: 10.1074/mcp.T600035-MCP200
21 Söderberg O, Gullberg M, Jarvius M, Ridderstråle K, Leuchowius KJ, Jarvius J, Wester K, Hydbring P, Bahram F, Larsson LG, Landegren U.
Direct observation of individual endogenous protein complexes in situ by proximity ligation.
Nat Methods. 2006 3(12):995-1000.
PubMed: 17072308 DOI: 10.1038/nmeth947
20 Steen J, Uhlén M, Hober S, Ottosson J.
High-throughput protein purification using an automated set-up for high-yield affinity chromatography.
Protein Expr Purif. 2006 46(2):173-8.
PubMed: 16483795 DOI: 10.1016/j.pep.2005.12.010
19 Andrade J, Berglund L, Uhlén M, Odeberg J.
Using Grid technology for computationally intensive applied bioinformatics analyses.
In Silico Biol. 2006 6(6):495-504.
PubMed: 17518760
18 Persson A, Hober S, Uhlén M.
A human protein atlas based on antibody proteomics.
Curr Opin Mol Ther. 2006 8(3):185-90.
PubMed: 16774037
17 Ek S, Andréasson U, Hober S, Kampf C, Pontén F, Uhlén M, Merz H, Borrebaeck CA.
From gene expression analysis to tissue microarrays: a rational approach to identify therapeutic and diagnostic targets in lymphoid malignancies.
Mol Cell Proteomics. 2006 5(6):1072-81.
PubMed: 16524965 DOI: 10.1074/mcp.M600077-MCP200
16 Eriksson C, Agaton C, Kånge R, Sundberg M, Nilsson P, Ek B, Uhlén M, Gustafsson M, Hober S.
Microfluidic analysis of antibody specificity in a compact disk format.
J Proteome Res. 2006 5(7):1568-74.
PubMed: 16823963 DOI: 10.1021/pr050447c
15 Haab BB, Paulovich AG, Anderson NL, Clark AM, Downing GJ, Hermjakob H, Labaer J, Uhlen M.
A reagent resource to identify proteins and peptides of interest for the cancer community: a workshop report.
Mol Cell Proteomics. 2006 5(10):1996-2007.
PubMed: 16867976 DOI: 10.1074/mcp.T600020-MCP200
14 Larsson K, Wester K, Nilsson P, Uhlén M, Hober S, Wernérus H.
Multiplexed PrEST immunization for high-throughput affinity proteomics.
J Immunol Methods. 2006 315(1-2):110-20.
PubMed: 16949094 DOI: 10.1016/j.jim.2006.07.014
13 Andersson AC, Strömberg S, Bäckvall H, Kampf C, Uhlen M, Wester K, Pontén F.
Analysis of protein expression in cell microarrays: a tool for antibody-based proteomics.
J Histochem Cytochem. 2006 54(12):1413-23.
PubMed: 16957166 DOI: 10.1369/jhc.6A7001.2006
12 Rada-Iglesias A, Wallerman O, Koch C, Ameur A, Enroth S, Clelland G, Wester K, Wilcox S, Dovey OM, Ellis PD, Wraight VL, James K, Andrews R, Langford C, Dhami P, Carter N, Vetrie D, Pontén F, Komorowski J, Dunham I, Wadelius C.
Binding sites for metabolic disease related transcription factors inferred at base pair resolution by chromatin immunoprecipitation and genomic microarrays.
Hum Mol Genet. 2005 14(22):3435-47.
PubMed: 16221759 DOI: 10.1093/hmg/ddi378
11 Janzi M, Odling J, Pan-Hammarström Q, Sundberg M, Lundeberg J, Uhlén M, Hammarström L, Nilsson P.
Serum microarrays for large scale screening of protein levels.
Mol Cell Proteomics. 2005 4(12):1942-7.
PubMed: 16131484 DOI: 10.1074/mcp.M500213-MCP200
10 Nilsson P, Paavilainen L, Larsson K, Odling J, Sundberg M, Andersson AC, Kampf C, Persson A, Al-Khalili Szigyarto C, Ottosson J, Björling E, Hober S, Wernérus H, Wester K, Pontén F, Uhlen M.
Towards a human proteome atlas: high-throughput generation of mono-specific antibodies for tissue profiling.
Proteomics. 2005 5(17):4327-37.
PubMed: 16237735 DOI: 10.1002/pmic.200500072
9 Hedhammar M, Stenvall M, Lönneborg R, Nord O, Sjölin O, Brismar H, Uhlén M, Ottosson J, Hober S.
A novel flow cytometry-based method for analysis of expression levels in Escherichia coli, giving information about precipitated and soluble protein.
J Biotechnol. 2005 119(2):133-46.
PubMed: 15996784 DOI: 10.1016/j.jbiotec.2005.03.024
8 Stenvall M, Steen J, Uhlén M, Hober S, Ottosson J.
High-throughput solubility assay for purified recombinant protein immunogens.
Biochim Biophys Acta. 2005 1752(1):6-10.
PubMed: 16084133 DOI: 10.1016/j.bbapap.2005.07.002
7 Uhlén M, Björling E, Agaton C, Szigyarto CA, Amini B, Andersen E, Andersson AC, Angelidou P, Asplund A, Asplund C, Berglund L, Bergström K, Brumer H, Cerjan D, Ekström M, Elobeid A, Eriksson C, Fagerberg L, Falk R, Fall J, Forsberg M, Björklund MG, Gumbel K, Halimi A, Hallin I, Hamsten C, Hansson M, Hedhammar M, Hercules G, Kampf C, Larsson K, Lindskog M, Lodewyckx W, Lund J, Lundeberg J, Magnusson K, Malm E, Nilsson P, Odling J, Oksvold P, Olsson I, Oster E, Ottosson J, Paavilainen L, Persson A, Rimini R, Rockberg J, Runeson M, Sivertsson A, Sköllermo A, Steen J, Stenvall M, Sterky F, Strömberg S, Sundberg M, Tegel H, Tourle S, Wahlund E, Waldén A, Wan J, Wernérus H, Westberg J, Wester K, Wrethagen U, Xu LL, Hober S, Pontén F.
A human protein atlas for normal and cancer tissues based on antibody proteomics.
Mol Cell Proteomics. 2005 4(12):1920-32.
PubMed: 16127175 DOI: 10.1074/mcp.M500279-MCP200
6 Lindskog M, Rockberg J, Uhlen M, Sterky F.
Selection of protein epitopes for antibody production
Biotechniques 2005 38(5):723-7.
PubMed: 15945371
5 Uhlen M, Ponten F.
Antibody-based proteomics for human tissue profiling.
Mol Cell Proteomics. 2005 4(4):384-93.
PubMed: 15695805 DOI: 10.1074/mcp.R500009-MCP200
4 Kampf C, Andersson A-C, Wester K, Björling E, Uhlen M, Ponten F
Antibody-based tissue profiling as a tool in clinical proteomics
Clin. Proteomics 2004 1(3-4):285-300.
DOI: 10.1385/CP:1:3-4:285
3 Agaton C, Uhlén M, Hober S.
Genome-based proteomics.
Electrophoresis. 2004 25(9):1280-8.
PubMed: 15174050 DOI: 10.1002/elps.200405846
2 Agaton C, Falk R, Hoiden Guthenberg I, Gostring L, Uhlen M, Hober S.
Selective enrichment of monospecific polyclonal antibodies for antibody-based proteomics efforts.
J Chromatogr A 2004 16;1043(1):33-40.
PubMed: 15317410
1 Agaton C, Galli J, Höidén Guthenberg I, Janzon L, Hansson M, Asplund A, Brundell E, Lindberg S, Ruthberg I, Wester K, Wurtz D, Höög C, Lundeberg J, Ståhl S, Pontén F, Uhlén M.
Affinity proteomics for systematic protein profiling of chromosome 21 gene products in human tissues.
Mol Cell Proteomics. 2003 2(6):405-14.
PubMed: 12796447 DOI: 10.1074/mcp.M300022-MCP200

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The Human Protein Atlas

The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg Foundation.