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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:43.3 nTPM
GTEx:47.2 nTPM
FANTOM5:37.7 Scaled Tags Per Million
Pig:16.8 nTPM

SUBSTANTIA NIGRA - HPA Brain RNA-seq
Avg nTPM 43.3
Sample id Sample description nTPM
Substantia nigra
nTPM: 43.3
2590 Female, age 75, unknown 45.7
1851 Male, age 51, unknown 45.5
2583 Male, age 75, right hemisphere 44.9
2665 Male, age 74, both hemispheres 44.7
2699 Male, age 18, unknown 44.7
1916 Female, age 42, unknown 44.5
1941 Male, age 53, unknown 43.7
1889 Female, age 72, unknown 42.4
2409 Female, age 72, unknown 39.8
2241 Male, age 72, unknown 37.3

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 47.2
GTEx sample id Sample description nTPM
Brain - Substantia nigra
Average nTPM: 47.2
Samples: 139

Max nTPM: 107.0
Min nTPM: 21.1
Std nTPM: 12.2
Median nTPM: 46.5
GTEX-ZE9C-0011-R2a-SM-4WKGH 60-69 years, male 107.0
GTEX-1IKOH-0011-R2a-SM-CMKHO 60-69 years, female 88.8
GTEX-X4XX-0011-R2A-SM-3P623 60-69 years, male 83.6
GTEX-1LVA9-0011-R2a-SM-EZ6MJ 50-59 years, male 82.2
GTEX-12WSD-0011-R2a-SM-5LZWB 60-69 years, female 77.2
GTEX-1LB8K-0011-R2a-SM-EZ6MQ 50-59 years, male 76.0
GTEX-13NYB-0011-R2a-SM-5MR3C 40-49 years, male 70.4
GTEX-ZAB4-0011-R2a-SM-4RGNP 40-49 years, male 66.2
GTEX-ZDXO-0011-R2b-SM-4WKFG 60-69 years, male 66.0
GTEX-1F75B-0011-R2a-SM-ARL8I 50-59 years, male 65.2
GTEX-11GS4-0011-R2a-SM-DO942 60-69 years, male 63.3
GTEX-1RLM8-0011-R2a-SM-EZ6N4 50-59 years, male 63.1
GTEX-17HG3-0011-R2a-SM-7MGVX 30-39 years, female 62.7
GTEX-ZV68-0011-R2a-SM-4YCDK 50-59 years, female 61.4
GTEX-1GTWX-0011-R2b-SM-ADEH5 60-69 years, male 60.4
GTEX-13CF2-0011-R2a-SM-5L3DC 60-69 years, male 59.7
GTEX-1MA7X-0011-R2b-SM-EZ6MT 60-69 years, male 59.7
GTEX-11PRG-0011-R2a-SM-69LQ5 50-59 years, male 57.8
GTEX-1H3VE-0011-R2a-SM-CE6SA 40-49 years, male 57.4
GTEX-1A8G7-0011-R2a-SM-7IGQI 60-69 years, male 57.3
GTEX-P44G-0011-R2A-SM-2XCD2 30-39 years, male 55.9
GTEX-139TS-0011-R2b-SM-5J1MX 60-69 years, male 55.2
GTEX-147GR-0011-R2b-SM-5S2RQ 60-69 years, male 55.0
GTEX-1IY9M-0011-R2a-SM-D4P29 60-69 years, male 54.9
GTEX-1H1DG-0011-R2a-SM-ADEIQ 70-79 years, male 54.6
GTEX-N7MT-0011-R2a-SM-2I3GI 60-69 years, female 54.4
GTEX-OXRO-0011-R2A-SM-3NB1W 60-69 years, female 53.9
GTEX-13OW8-0011-R2a-SM-5L3G2 60-69 years, male 53.8
GTEX-13O3O-0011-R2b-SM-5P9H1 60-69 years, female 53.4
GTEX-T2IS-0011-R2A-SM-32QPF 20-29 years, female 53.3
GTEX-14BIN-0011-R2a-SM-5S2RJ 50-59 years, female 53.2
GTEX-1H3O1-0011-R2b-SM-CKZOT 60-69 years, male 53.0
GTEX-18464-0011-R2a-SM-731AL 50-59 years, male 52.1
GTEX-1LVAO-0011-R2a-SM-EYYX1 60-69 years, male 51.9
GTEX-14BIM-0011-R2b-SM-69LQ6 60-69 years, female 51.8
GTEX-11EMC-0011-R2b-SM-DO114 60-69 years, female 51.8
GTEX-T5JC-0011-R2A-SM-32PLZ 20-29 years, male 51.5
GTEX-1I1CD-0011-R2a-SM-CM2T3 60-69 years, female 51.4
GTEX-11UD1-0011-R2b-SM-5BC6O 40-49 years, female 51.1
GTEX-14C5O-0011-R2a-SM-5ZZV2 60-69 years, male 51.0
GTEX-1313W-0011-R2a-SM-5EGLF 50-59 years, female 50.8
GTEX-13PDP-0011-R2b-SM-5O9DH 60-69 years, male 50.8
GTEX-17EVP-0011-R2a-SM-7LG4W 40-49 years, male 50.1
GTEX-NPJ7-0011-R2a-SM-2I3GF 60-69 years, female 49.9
GTEX-1GMR8-0011-R2a-SM-CE6RD 50-59 years, female 49.9
GTEX-1I1GS-0011-R2b-SM-CMKHG 60-69 years, male 49.9
GTEX-RU72-0011-R2A-SM-2TF6O 50-59 years, female 49.6
GTEX-X585-0011-R2B-SM-46MVF 50-59 years, male 49.5
GTEX-1IGQW-0011-R2b-SM-D4P26 60-69 years, male 49.2
GTEX-XLM4-0011-R2B-SM-4AT5Z 60-69 years, male 49.1
GTEX-1J8Q2-0011-R2b-SM-EAZ2X 60-69 years, male 48.5
GTEX-NL4W-0011-R2a-SM-2I5GV 50-59 years, male 48.2
GTEX-12WSF-0011-R2a-SM-5DUVU 70-79 years, male 48.0
GTEX-132Q8-0011-R2b-SM-5EQ5Z 60-69 years, male 48.0
GTEX-14PJO-0011-R2a-SM-5ZZVF 60-69 years, male 47.8
GTEX-15DYW-0011-R2b-SM-7KUKY 60-69 years, female 47.8
GTEX-S7SE-0011-R2A-SM-2XCDC 50-59 years, male 47.6
GTEX-1HSMO-0011-R2a-SM-CL553 60-69 years, male 47.4
GTEX-11WQC-0011-R2a-SM-DO927 60-69 years, male 47.2
GTEX-1CB4G-0011-R2a-SM-9QEGQ 60-69 years, male 47.1
GTEX-1H1ZS-0011-R2b-SM-CL54Q 70-79 years, male 47.1
GTEX-1HFI6-0011-R2a-SM-CMKH5 40-49 years, male 47.1
GTEX-XMD1-0011-R2B-SM-4AT5N 60-69 years, male 47.0
GTEX-N7MS-0011-R2a-SM-2HML6 60-69 years, male 46.9
GTEX-YFC4-0011-R2a-SM-4V6DZ 40-49 years, female 46.9
GTEX-WHSE-0011-R2A-SM-3P5ZL 20-29 years, male 46.8
GTEX-1E1VI-0011-R2a-SM-9QEGS 50-59 years, male 46.7
GTEX-1GN2E-0011-R2a-SM-9WG7D 60-69 years, male 46.6
GTEX-13N2G-0011-R2a-SM-5MR4Q 60-69 years, male 46.5
GTEX-13O3Q-0011-R2b-SM-5KM3K 50-59 years, male 46.5
GTEX-1F6IF-0011-R2b-SM-9QEHB 60-69 years, male 46.5
GTEX-13NYS-0011-R2b-SM-5MR4G 60-69 years, male 46.4
GTEX-1F48J-0011-R2a-SM-CL535 50-59 years, female 46.1
GTEX-1EMGI-0011-R2b-SM-9OSVS 60-69 years, male 45.8
GTEX-11GSO-0011-R2a-SM-57WDF 60-69 years, male 45.6
GTEX-1399T-0011-R2b-SM-5DUXM 60-69 years, male 45.5
GTEX-1IL2U-0011-R2a-SM-ARU6V 60-69 years, male 45.5
GTEX-15DCD-0011-R2b-SM-6LPIE 70-79 years, female 45.2
GTEX-T6MN-0011-R2A-SM-32QOW 50-59 years, male 45.2
GTEX-1B8SG-0011-R2b-SM-79OOT 50-59 years, male 44.7
GTEX-13FXS-0011-R2b-SM-5K7XX 50-59 years, male 44.6
GTEX-13SLW-0011-R2b-SM-5O9C6 70-79 years, male 44.5
GTEX-1IKJJ-0011-R2b-SM-ARZLJ 60-69 years, male 44.5
GTEX-12WSH-0011-R2a-SM-5GU68 50-59 years, male 43.9
GTEX-131XH-0011-R2b-SM-5DUVY 50-59 years, male 43.9
GTEX-1EKGG-0011-R2a-SM-CE6R8 60-69 years, male 43.7
GTEX-13QJC-0011-R2b-SM-5PNUN 60-69 years, female 43.2
GTEX-1GN73-0011-R2a-SM-CJI2V 60-69 years, male 43.1
GTEX-1HB9E-0011-R2b-SM-A96RW 50-59 years, male 42.9
GTEX-14ASI-0011-R2b-SM-5YY9H 60-69 years, male 42.2
GTEX-1J1OQ-0011-R2b-SM-ARU88 40-49 years, female 42.1
GTEX-YJ89-0011-R2b-SM-4RGLT 60-69 years, male 42.0
GTEX-12ZZX-0011-R2a-SM-5EGLG 40-49 years, female 41.9
GTEX-1EU9M-0011-R2b-SM-9QEH7 60-69 years, male 41.6
GTEX-15RJE-0011-R2b-SM-79OMP 40-49 years, male 41.4
GTEX-Z93S-0011-R2a-SM-4RGNG 50-59 years, male 41.2
GTEX-13OVJ-0011-R2b-SM-5L3GP 50-59 years, female 41.1
GTEX-145LS-0011-R2a-SM-5PNZI 60-69 years, female 41.0
GTEX-14JG1-0011-R2a-SM-5ZZVE 40-49 years, male 40.9
GTEX-Q2AG-0011-R2A-SM-2HMIT 40-49 years, female 40.7
GTEX-1B933-0011-R2b-SM-7IGNM 50-59 years, female 40.3
GTEX-13X6K-0011-R2b-SM-5P9K3 60-69 years, female 40.2
GTEX-PWO3-0011-R2A-SM-2S1OX 60-69 years, female 39.9
GTEX-1GZ2Q-0011-R2b-SM-9OSWO 40-49 years, male 39.6
GTEX-13G51-0011-R2b-SM-5LZXS 60-69 years, male 39.5
GTEX-13SLX-0011-R2b-SM-5S2VP 50-59 years, female 39.5
GTEX-11DZ1-0011-R2a-SM-DNZZM 50-59 years, male 39.5
GTEX-1B996-0011-R2a-SM-7IGON 60-69 years, male 39.1
GTEX-1F6I4-0011-R2a-SM-CL536 60-69 years, male 39.0
GTEX-13OW6-0011-R2a-SM-5L3HG 50-59 years, male 38.7
GTEX-16Z82-0011-R2b-SM-79OK9 60-69 years, male 38.6
GTEX-15ER7-0011-R2a-SM-6M46O 20-29 years, female 38.2
GTEX-UTHO-0011-R2A-SM-3GIKC 60-69 years, male 38.2
GTEX-1445S-0011-R2b-SM-5PNUH 60-69 years, male 37.8
GTEX-1HR98-0011-R2a-SM-ARL7A 60-69 years, male 37.6
GTEX-11TUW-0011-R2b-SM-DO92T 60-69 years, male 37.5
GTEX-1GN1U-0011-R2a-SM-CL53A 50-59 years, female 37.2
GTEX-11GSP-0011-R2b-SM-9QEGE 60-69 years, female 36.6
GTEX-1C6VR-0011-R2a-SM-7RHGZ 60-69 years, male 36.4
GTEX-11ZTS-0011-R2b-SM-5BC75 60-69 years, female 36.1
GTEX-1JMQK-0011-R2a-SM-EYYXQ 60-69 years, male 36.1
GTEX-15CHQ-0011-R2b-SM-6AJAD 60-69 years, male 35.8
GTEX-12WSA-0011-R2a-SM-57WDK 60-69 years, male 35.1
GTEX-14PN4-0011-R2a-SM-6EU2Y 50-59 years, male 34.6
GTEX-1LSNL-0011-R2a-SM-EZ6MK 50-59 years, male 33.6
GTEX-13X6I-0011-R2b-SM-5PNWQ 60-69 years, male 33.5
GTEX-1LH75-0011-R2b-SM-EYYWQ 50-59 years, female 33.4
GTEX-13RTJ-0011-R2a-SM-5PNW9 60-69 years, male 33.3
GTEX-1A3MX-0011-R2b-SM-7EWFL 60-69 years, male 33.1
GTEX-1HT8W-0011-R2a-SM-CMKH9 30-39 years, male 32.7
GTEX-1I1GV-0011-R2a-SM-ARZLF 60-69 years, male 32.5
GTEX-NPJ8-0011-R2a-SM-2TC6M 40-49 years, male 32.3
GTEX-R55E-0011-R2A-SM-EYYV9 20-29 years, male 31.8
GTEX-1B8L1-0011-R2a-SM-9OSVL 60-69 years, male 30.7
GTEX-1H23P-0011-R2a-SM-CKZP3 60-69 years, male 30.4
GTEX-15EO6-0011-R2a-SM-6M46R 50-59 years, male 28.9
GTEX-QMR6-0011-R2A-SM-32PKV 50-59 years, male 25.0
GTEX-OHPN-0011-R2A-SM-2I5FB 60-69 years, female 22.3
GTEX-QDT8-0011-R2A-SM-32PKQ 30-39 years, female 21.1
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 37.7
FANTOM5 sample id Sample description Scaled Tags Per Million
Substantia nigra
Scaled Tags Per Million: 37.7
FF:10158-103A5 76 years, female 37.7

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 16.8
Pig sample Sample description nTPM
Substantia nigra
nTPM: 16.8
Samples: 4

Max nTPM: 18.6
Min nTPM: 15.5
Sample A Female 18.6
Sample B Female 15.5
Sample C Male 16.6
Sample D Male 16.6

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