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BRAIN SUBSTANTIA NIGRA Show tissue menu
AMYGDALA BASAL GANGLIA CEREBELLUM CEREBRAL CORTEX HIPPOCAMPAL FORMATION HYPOTHALAMUS MEDULLA OBLONGATA MIDBRAIN
OLFACTORY BULB PITUITARY GLAND PONS RETINA SPINAL CORD THALAMUS WHITE MATTER
ANTIBODIES
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VALIDATION
Brain proteome
SUBSTANTIA NIGRA - Expression summary
Protein profiling
Multiplex tissuei

A summary of the protein localization in the current human tissue based on multiplex immunohistochemistry profiling in selected tissues is shown for genes where this analysis has been performed.

Protein expressioni

On the top, protein expression in current human tissue, based on all annotated cell types, is reported with the units not detected (n), low (l), medium (m) and high (h). Underneath, protein expression in each annotated cell type are reported using the same units.

Protein expression data is based on knowledge-based annotation. For genes where more than one antibody has been used, a collective score is set.

If knowledge-based annotation could not be performed for a gene, no data is displayed here. View antibody staining data further down this page.

Read more
No data
RNA expressioni

A summary of mRNA expression data available for current tissue based on several datasets. The mRNA expression levels in human tissues are based on RNA-seq data generated by the Human Protein Atlas (HPA), Genotype-Tissue Expression (GTEx) portal and CAGE data generated by the FANTOM5 consortium. Consensus normalized expression levels for human tissues was created by combining the data from HPA and GTEx datasets.

The mRNA expression levels in pig are based on RNA-seq data generated by the Human Protein Atlas (HPA), and for mouse, HPA data and in situ hybridization generated by the Allen brain atlas are reported.

Scroll down to view mRNA expression data in more detail.
Read more
HPA:92.3 nTPM
GTEx:91.5 nTPM
FANTOM5:64.2 Scaled Tags Per Million
Pig:40.3 nTPM

SUBSTANTIA NIGRA - HPA Brain RNA-seq
Avg nTPM 92.3
Sample id Sample description nTPM
Substantia nigra
nTPM: 92.3
2409 Female, age 72, unknown 102.7
2590 Female, age 75, unknown 96.4
1941 Male, age 53, unknown 95.0
1889 Female, age 72, unknown 94.7
2699 Male, age 18, unknown 94.2
1851 Male, age 51, unknown 93.8
2583 Male, age 75, right hemisphere 91.5
2241 Male, age 72, unknown 87.6
1916 Female, age 42, unknown 85.6
2665 Male, age 74, both hemispheres 81.5

SUBSTANTIA NIGRA - GTEx RNA-seqi

RNA-Seq data generated by the Genotype-Tissue Expression (GTEx) project from human tissues is reported as mean nTPM. More information can be found on the GTEx portal.

Distribution across the dataset is visualized with box plots, shown as median and 25th and 75th percentiles. Points are displayed as outliers if they are above or below 1.5 times the interquartile range. nTPM values of the individual samples are presented next to the box plot.
Read more
Average nTPM 91.5
GTEx sample id Sample description nTPM
Brain - Substantia nigra
Average nTPM: 91.5
Samples: 139

Max nTPM: 308.3
Min nTPM: 19.0
Std nTPM: 52.2
Median nTPM: 82.2
GTEX-1LVAO-0011-R2a-SM-EYYX1 60-69 years, male 308.3
GTEX-1IKJJ-0011-R2b-SM-ARZLJ 60-69 years, male 265.8
GTEX-13X6K-0011-R2b-SM-5P9K3 60-69 years, female 262.2
GTEX-1F48J-0011-R2a-SM-CL535 50-59 years, female 257.6
GTEX-1H3VE-0011-R2a-SM-CE6SA 40-49 years, male 251.6
GTEX-1IGQW-0011-R2b-SM-D4P26 60-69 years, male 248.8
GTEX-13NYS-0011-R2b-SM-5MR4G 60-69 years, male 238.7
GTEX-1JMQK-0011-R2a-SM-EYYXQ 60-69 years, male 231.8
GTEX-1EU9M-0011-R2b-SM-9QEH7 60-69 years, male 192.8
GTEX-132Q8-0011-R2b-SM-5EQ5Z 60-69 years, male 178.2
GTEX-1HSMO-0011-R2a-SM-CL553 60-69 years, male 164.0
GTEX-1A3MX-0011-R2b-SM-7EWFL 60-69 years, male 157.3
GTEX-1C6VR-0011-R2a-SM-7RHGZ 60-69 years, male 152.8
GTEX-NPJ8-0011-R2a-SM-2TC6M 40-49 years, male 145.9
GTEX-1H1DG-0011-R2a-SM-ADEIQ 70-79 years, male 124.1
GTEX-1F6IF-0011-R2b-SM-9QEHB 60-69 years, male 123.8
GTEX-1CB4G-0011-R2a-SM-9QEGQ 60-69 years, male 123.3
GTEX-1GN1U-0011-R2a-SM-CL53A 50-59 years, female 122.8
GTEX-XMD1-0011-R2B-SM-4AT5N 60-69 years, male 121.5
GTEX-11GS4-0011-R2a-SM-DO942 60-69 years, male 121.5
GTEX-1GZ2Q-0011-R2b-SM-9OSWO 40-49 years, male 121.5
GTEX-14C5O-0011-R2a-SM-5ZZV2 60-69 years, male 120.0
GTEX-OHPN-0011-R2A-SM-2I5FB 60-69 years, female 117.9
GTEX-11GSP-0011-R2b-SM-9QEGE 60-69 years, female 117.8
GTEX-1B8SG-0011-R2b-SM-79OOT 50-59 years, male 116.4
GTEX-14BIM-0011-R2b-SM-69LQ6 60-69 years, female 115.1
GTEX-13CF2-0011-R2a-SM-5L3DC 60-69 years, male 114.5
GTEX-13OVJ-0011-R2b-SM-5L3GP 50-59 years, female 114.0
GTEX-1B996-0011-R2a-SM-7IGON 60-69 years, male 114.0
GTEX-1GTWX-0011-R2b-SM-ADEH5 60-69 years, male 113.8
GTEX-12WSA-0011-R2a-SM-57WDK 60-69 years, male 112.9
GTEX-1RLM8-0011-R2a-SM-EZ6N4 50-59 years, male 112.5
GTEX-1IKOH-0011-R2a-SM-CMKHO 60-69 years, female 111.7
GTEX-13SLW-0011-R2b-SM-5O9C6 70-79 years, male 111.6
GTEX-11TUW-0011-R2b-SM-DO92T 60-69 years, male 109.9
GTEX-1J8Q2-0011-R2b-SM-EAZ2X 60-69 years, male 109.5
GTEX-14PN4-0011-R2a-SM-6EU2Y 50-59 years, male 109.4
GTEX-1H3O1-0011-R2b-SM-CKZOT 60-69 years, male 109.4
GTEX-11EMC-0011-R2b-SM-DO114 60-69 years, female 108.4
GTEX-1LSNL-0011-R2a-SM-EZ6MK 50-59 years, male 107.2
GTEX-15EO6-0011-R2a-SM-6M46R 50-59 years, male 106.8
GTEX-QDT8-0011-R2A-SM-32PKQ 30-39 years, female 106.1
GTEX-1GN2E-0011-R2a-SM-9WG7D 60-69 years, male 105.9
GTEX-11ZTS-0011-R2b-SM-5BC75 60-69 years, female 105.6
GTEX-13RTJ-0011-R2a-SM-5PNW9 60-69 years, male 105.2
GTEX-NL4W-0011-R2a-SM-2I5GV 50-59 years, male 103.6
GTEX-ZV68-0011-R2a-SM-4YCDK 50-59 years, female 103.1
GTEX-YJ89-0011-R2b-SM-4RGLT 60-69 years, male 103.0
GTEX-1I1GS-0011-R2b-SM-CMKHG 60-69 years, male 101.7
GTEX-1H1ZS-0011-R2b-SM-CL54Q 70-79 years, male 98.8
GTEX-12WSH-0011-R2a-SM-5GU68 50-59 years, male 98.7
GTEX-1J1OQ-0011-R2b-SM-ARU88 40-49 years, female 97.7
GTEX-OXRO-0011-R2A-SM-3NB1W 60-69 years, female 93.7
GTEX-1HR98-0011-R2a-SM-ARL7A 60-69 years, male 93.5
GTEX-1EKGG-0011-R2a-SM-CE6R8 60-69 years, male 93.3
GTEX-12WSF-0011-R2a-SM-5DUVU 70-79 years, male 92.7
GTEX-1445S-0011-R2b-SM-5PNUH 60-69 years, male 92.0
GTEX-13X6I-0011-R2b-SM-5PNWQ 60-69 years, male 89.0
GTEX-1E1VI-0011-R2a-SM-9QEGS 50-59 years, male 88.0
GTEX-1H23P-0011-R2a-SM-CKZP3 60-69 years, male 86.6
GTEX-16Z82-0011-R2b-SM-79OK9 60-69 years, male 85.8
GTEX-11GSO-0011-R2a-SM-57WDF 60-69 years, male 85.5
GTEX-PWO3-0011-R2A-SM-2S1OX 60-69 years, female 85.0
GTEX-17HG3-0011-R2a-SM-7MGVX 30-39 years, female 84.9
GTEX-1IL2U-0011-R2a-SM-ARU6V 60-69 years, male 84.0
GTEX-1LVA9-0011-R2a-SM-EZ6MJ 50-59 years, male 83.8
GTEX-14PJO-0011-R2a-SM-5ZZVF 60-69 years, male 83.4
GTEX-13G51-0011-R2b-SM-5LZXS 60-69 years, male 82.8
GTEX-T6MN-0011-R2A-SM-32QOW 50-59 years, male 82.8
GTEX-1HFI6-0011-R2a-SM-CMKH5 40-49 years, male 82.2
GTEX-15DCD-0011-R2b-SM-6LPIE 70-79 years, female 80.8
GTEX-QMR6-0011-R2A-SM-32PKV 50-59 years, male 77.0
GTEX-1LH75-0011-R2b-SM-EYYWQ 50-59 years, female 76.4
GTEX-13FXS-0011-R2b-SM-5K7XX 50-59 years, male 76.0
GTEX-12ZZX-0011-R2a-SM-5EGLG 40-49 years, female 75.6
GTEX-147GR-0011-R2b-SM-5S2RQ 60-69 years, male 75.6
GTEX-1F6I4-0011-R2a-SM-CL536 60-69 years, male 75.2
GTEX-11PRG-0011-R2a-SM-69LQ5 50-59 years, male 74.3
GTEX-14JG1-0011-R2a-SM-5ZZVE 40-49 years, male 72.7
GTEX-1A8G7-0011-R2a-SM-7IGQI 60-69 years, male 72.6
GTEX-1HB9E-0011-R2b-SM-A96RW 50-59 years, male 70.3
GTEX-1399T-0011-R2b-SM-5DUXM 60-69 years, male 68.7
GTEX-X585-0011-R2B-SM-46MVF 50-59 years, male 68.6
GTEX-1F75B-0011-R2a-SM-ARL8I 50-59 years, male 68.6
GTEX-13PDP-0011-R2b-SM-5O9DH 60-69 years, male 68.0
GTEX-13OW8-0011-R2a-SM-5L3G2 60-69 years, male 67.8
GTEX-NPJ7-0011-R2a-SM-2I3GF 60-69 years, female 67.7
GTEX-11WQC-0011-R2a-SM-DO927 60-69 years, male 67.3
GTEX-12WSD-0011-R2a-SM-5LZWB 60-69 years, female 67.1
GTEX-13QJC-0011-R2b-SM-5PNUN 60-69 years, female 66.4
GTEX-11UD1-0011-R2b-SM-5BC6O 40-49 years, female 65.7
GTEX-ZDXO-0011-R2b-SM-4WKFG 60-69 years, male 64.3
GTEX-1I1GV-0011-R2a-SM-ARZLF 60-69 years, male 62.6
GTEX-R55E-0011-R2A-SM-EYYV9 20-29 years, male 62.5
GTEX-14ASI-0011-R2b-SM-5YY9H 60-69 years, male 61.7
GTEX-1MA7X-0011-R2b-SM-EZ6MT 60-69 years, male 61.5
GTEX-13OW6-0011-R2a-SM-5L3HG 50-59 years, male 61.2
GTEX-13NYB-0011-R2a-SM-5MR3C 40-49 years, male 60.5
GTEX-131XH-0011-R2b-SM-5DUVY 50-59 years, male 60.4
GTEX-18464-0011-R2a-SM-731AL 50-59 years, male 60.1
GTEX-145LS-0011-R2a-SM-5PNZI 60-69 years, female 59.5
GTEX-13O3O-0011-R2b-SM-5P9H1 60-69 years, female 59.1
GTEX-15DYW-0011-R2b-SM-7KUKY 60-69 years, female 58.5
GTEX-1GMR8-0011-R2a-SM-CE6RD 50-59 years, female 58.3
GTEX-P44G-0011-R2A-SM-2XCD2 30-39 years, male 57.9
GTEX-XLM4-0011-R2B-SM-4AT5Z 60-69 years, male 57.2
GTEX-13N2G-0011-R2a-SM-5MR4Q 60-69 years, male 56.1
GTEX-S7SE-0011-R2A-SM-2XCDC 50-59 years, male 55.4
GTEX-14BIN-0011-R2a-SM-5S2RJ 50-59 years, female 54.9
GTEX-N7MT-0011-R2a-SM-2I3GI 60-69 years, female 54.3
GTEX-15RJE-0011-R2b-SM-79OMP 40-49 years, male 53.5
GTEX-13O3Q-0011-R2b-SM-5KM3K 50-59 years, male 53.4
GTEX-17EVP-0011-R2a-SM-7LG4W 40-49 years, male 53.0
GTEX-1B933-0011-R2b-SM-7IGNM 50-59 years, female 52.2
GTEX-1IY9M-0011-R2a-SM-D4P29 60-69 years, male 51.8
GTEX-15CHQ-0011-R2b-SM-6AJAD 60-69 years, male 51.2
GTEX-1EMGI-0011-R2b-SM-9OSVS 60-69 years, male 49.1
GTEX-11DZ1-0011-R2a-SM-DNZZM 50-59 years, male 48.9
GTEX-13SLX-0011-R2b-SM-5S2VP 50-59 years, female 48.6
GTEX-ZE9C-0011-R2a-SM-4WKGH 60-69 years, male 47.3
GTEX-RU72-0011-R2A-SM-2TF6O 50-59 years, female 46.9
GTEX-1I1CD-0011-R2a-SM-CM2T3 60-69 years, female 46.1
GTEX-YFC4-0011-R2a-SM-4V6DZ 40-49 years, female 45.6
GTEX-15ER7-0011-R2a-SM-6M46O 20-29 years, female 45.5
GTEX-1B8L1-0011-R2a-SM-9OSVL 60-69 years, male 44.1
GTEX-N7MS-0011-R2a-SM-2HML6 60-69 years, male 42.6
GTEX-T2IS-0011-R2A-SM-32QPF 20-29 years, female 41.6
GTEX-Z93S-0011-R2a-SM-4RGNG 50-59 years, male 41.6
GTEX-Q2AG-0011-R2A-SM-2HMIT 40-49 years, female 40.5
GTEX-ZAB4-0011-R2a-SM-4RGNP 40-49 years, male 38.2
GTEX-1313W-0011-R2a-SM-5EGLF 50-59 years, female 37.0
GTEX-UTHO-0011-R2A-SM-3GIKC 60-69 years, male 36.6
GTEX-1LB8K-0011-R2a-SM-EZ6MQ 50-59 years, male 36.3
GTEX-1GN73-0011-R2a-SM-CJI2V 60-69 years, male 35.2
GTEX-WHSE-0011-R2A-SM-3P5ZL 20-29 years, male 33.7
GTEX-T5JC-0011-R2A-SM-32PLZ 20-29 years, male 32.5
GTEX-139TS-0011-R2b-SM-5J1MX 60-69 years, male 27.1
GTEX-1HT8W-0011-R2a-SM-CMKH9 30-39 years, male 24.8
GTEX-X4XX-0011-R2A-SM-3P623 60-69 years, male 19.0
Show allShow less

SUBSTANTIA NIGRA - FANTOM5 CAGEi

RNA expression in human tissues obtained through Cap Analysis of Gene Expression (CAGE) generated by the FANTOM5 project are reported as Scaled Tags Per Million.

Read more
Max Scaled Tags Per Million 64.2
FANTOM5 sample id Sample description Scaled Tags Per Million
Substantia nigra
Scaled Tags Per Million: 64.2
FF:10158-103A5 76 years, female 64.2

SUBSTANTIA NIGRA - Pig RNA-seqi

RNA-seq data obtained from pig brain is reported as nTPM .

Normal distribution across the dataset is visualized with box plots, shown as median and 25th and 75th percentiles. Points are displayed as outliers if they are above or below 1.5 times the interquartile range. nTPM values of the individual samples are presented next to the box plot.
Read more
Average nTPM 40.3
Pig sample Sample description nTPM
Substantia nigra
nTPM: 40.3
Samples: 4

Max nTPM: 57.9
Min nTPM: 23.0
Sample A Female 49.9
Sample B Female 30.4
Sample C Male 57.9
Sample D Male 23.0

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