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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:28.4 nTPM
GTEx:34.0 nTPM
FANTOM5:41.6 Scaled Tags Per Million
Pig:11.5 nTPM

SUBSTANTIA NIGRA - HPA Brain RNA-seq
Avg nTPM 28.4
Sample id Sample description nTPM
Substantia nigra
nTPM: 28.4
2699 Male, age 18, unknown 31.2
2241 Male, age 72, unknown 30.2
2583 Male, age 75, right hemisphere 28.4
1916 Female, age 42, unknown 28.3
1851 Male, age 51, unknown 28.1
1889 Female, age 72, unknown 28.1
2665 Male, age 74, both hemispheres 27.8
2409 Female, age 72, unknown 27.6
2590 Female, age 75, unknown 27.5
1941 Male, age 53, unknown 27.0

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 34.0
GTEx sample id Sample description nTPM
Brain - Substantia nigra
Average nTPM: 34.0
Samples: 139

Max nTPM: 71.0
Min nTPM: 13.9
Std nTPM: 10.5
Median nTPM: 32.5
GTEX-1GN1U-0011-R2a-SM-CL53A 50-59 years, female 71.0
GTEX-1GN2E-0011-R2a-SM-9WG7D 60-69 years, male 62.8
GTEX-17HG3-0011-R2a-SM-7MGVX 30-39 years, female 61.3
GTEX-YJ89-0011-R2b-SM-4RGLT 60-69 years, male 59.6
GTEX-1IGQW-0011-R2b-SM-D4P26 60-69 years, male 57.8
GTEX-ZV68-0011-R2a-SM-4YCDK 50-59 years, female 54.7
GTEX-13CF2-0011-R2a-SM-5L3DC 60-69 years, male 52.8
GTEX-1JMQK-0011-R2a-SM-EYYXQ 60-69 years, male 52.6
GTEX-1C6VR-0011-R2a-SM-7RHGZ 60-69 years, male 51.2
GTEX-OHPN-0011-R2A-SM-2I5FB 60-69 years, female 50.8
GTEX-1LB8K-0011-R2a-SM-EZ6MQ 50-59 years, male 49.7
GTEX-12WSA-0011-R2a-SM-57WDK 60-69 years, male 49.6
GTEX-1I1CD-0011-R2a-SM-CM2T3 60-69 years, female 48.7
GTEX-1RLM8-0011-R2a-SM-EZ6N4 50-59 years, male 47.8
GTEX-139TS-0011-R2b-SM-5J1MX 60-69 years, male 47.5
GTEX-ZDXO-0011-R2b-SM-4WKFG 60-69 years, male 47.5
GTEX-12WSD-0011-R2a-SM-5LZWB 60-69 years, female 47.3
GTEX-11GS4-0011-R2a-SM-DO942 60-69 years, male 46.8
GTEX-1LVA9-0011-R2a-SM-EZ6MJ 50-59 years, male 46.8
GTEX-1F75B-0011-R2a-SM-ARL8I 50-59 years, male 46.6
GTEX-1MA7X-0011-R2b-SM-EZ6MT 60-69 years, male 46.5
GTEX-1I1GS-0011-R2b-SM-CMKHG 60-69 years, male 44.8
GTEX-13G51-0011-R2b-SM-5LZXS 60-69 years, male 44.3
GTEX-14PJO-0011-R2a-SM-5ZZVF 60-69 years, male 43.7
GTEX-1F48J-0011-R2a-SM-CL535 50-59 years, female 42.6
GTEX-17EVP-0011-R2a-SM-7LG4W 40-49 years, male 42.1
GTEX-PWO3-0011-R2A-SM-2S1OX 60-69 years, female 42.1
GTEX-1IL2U-0011-R2a-SM-ARU6V 60-69 years, male 42.0
GTEX-1EKGG-0011-R2a-SM-CE6R8 60-69 years, male 41.5
GTEX-1H1ZS-0011-R2b-SM-CL54Q 70-79 years, male 41.5
GTEX-ZE9C-0011-R2a-SM-4WKGH 60-69 years, male 40.9
GTEX-11TUW-0011-R2b-SM-DO92T 60-69 years, male 40.5
GTEX-1H3O1-0011-R2b-SM-CKZOT 60-69 years, male 40.3
GTEX-11PRG-0011-R2a-SM-69LQ5 50-59 years, male 39.6
GTEX-QMR6-0011-R2A-SM-32PKV 50-59 years, male 39.6
GTEX-R55E-0011-R2A-SM-EYYV9 20-29 years, male 39.6
GTEX-1GTWX-0011-R2b-SM-ADEH5 60-69 years, male 39.4
GTEX-18464-0011-R2a-SM-731AL 50-59 years, male 39.3
GTEX-1H23P-0011-R2a-SM-CKZP3 60-69 years, male 38.9
GTEX-1J8Q2-0011-R2b-SM-EAZ2X 60-69 years, male 38.6
GTEX-1A8G7-0011-R2a-SM-7IGQI 60-69 years, male 38.4
GTEX-1E1VI-0011-R2a-SM-9QEGS 50-59 years, male 38.4
GTEX-11EMC-0011-R2b-SM-DO114 60-69 years, female 37.9
GTEX-1EU9M-0011-R2b-SM-9QEH7 60-69 years, male 37.9
GTEX-12WSH-0011-R2a-SM-5GU68 50-59 years, male 37.5
GTEX-T6MN-0011-R2A-SM-32QOW 50-59 years, male 37.4
GTEX-1H1DG-0011-R2a-SM-ADEIQ 70-79 years, male 37.4
GTEX-11ZTS-0011-R2b-SM-5BC75 60-69 years, female 37.3
GTEX-14ASI-0011-R2b-SM-5YY9H 60-69 years, male 37.3
GTEX-1B8L1-0011-R2a-SM-9OSVL 60-69 years, male 37.3
GTEX-1B8SG-0011-R2b-SM-79OOT 50-59 years, male 37.2
GTEX-13X6K-0011-R2b-SM-5P9K3 60-69 years, female 36.8
GTEX-11UD1-0011-R2b-SM-5BC6O 40-49 years, female 36.6
GTEX-1F6IF-0011-R2b-SM-9QEHB 60-69 years, male 36.5
GTEX-13NYB-0011-R2a-SM-5MR3C 40-49 years, male 36.0
GTEX-1GZ2Q-0011-R2b-SM-9OSWO 40-49 years, male 35.9
GTEX-RU72-0011-R2A-SM-2TF6O 50-59 years, female 35.6
GTEX-1LSNL-0011-R2a-SM-EZ6MK 50-59 years, male 35.5
GTEX-S7SE-0011-R2A-SM-2XCDC 50-59 years, male 35.2
GTEX-1HR98-0011-R2a-SM-ARL7A 60-69 years, male 35.2
GTEX-P44G-0011-R2A-SM-2XCD2 30-39 years, male 35.1
GTEX-1445S-0011-R2b-SM-5PNUH 60-69 years, male 35.0
GTEX-1LVAO-0011-R2a-SM-EYYX1 60-69 years, male 34.8
GTEX-1J1OQ-0011-R2b-SM-ARU88 40-49 years, female 34.4
GTEX-1H3VE-0011-R2a-SM-CE6SA 40-49 years, male 34.3
GTEX-1HT8W-0011-R2a-SM-CMKH9 30-39 years, male 33.9
GTEX-T2IS-0011-R2A-SM-32QPF 20-29 years, female 33.3
GTEX-UTHO-0011-R2A-SM-3GIKC 60-69 years, male 33.1
GTEX-15DYW-0011-R2b-SM-7KUKY 60-69 years, female 33.0
GTEX-11WQC-0011-R2a-SM-DO927 60-69 years, male 32.5
GTEX-1GMR8-0011-R2a-SM-CE6RD 50-59 years, female 32.4
GTEX-1B996-0011-R2a-SM-7IGON 60-69 years, male 32.1
GTEX-1LH75-0011-R2b-SM-EYYWQ 50-59 years, female 31.6
GTEX-11GSP-0011-R2b-SM-9QEGE 60-69 years, female 31.3
GTEX-1IKOH-0011-R2a-SM-CMKHO 60-69 years, female 31.3
GTEX-1F6I4-0011-R2a-SM-CL536 60-69 years, male 31.2
GTEX-13RTJ-0011-R2a-SM-5PNW9 60-69 years, male 30.6
GTEX-16Z82-0011-R2b-SM-79OK9 60-69 years, male 30.4
GTEX-1399T-0011-R2b-SM-5DUXM 60-69 years, male 30.2
GTEX-11GSO-0011-R2a-SM-57WDF 60-69 years, male 30.1
GTEX-Q2AG-0011-R2A-SM-2HMIT 40-49 years, female 30.1
GTEX-13SLW-0011-R2b-SM-5O9C6 70-79 years, male 30.0
GTEX-147GR-0011-R2b-SM-5S2RQ 60-69 years, male 29.9
GTEX-13OW8-0011-R2a-SM-5L3G2 60-69 years, male 29.7
GTEX-13O3O-0011-R2b-SM-5P9H1 60-69 years, female 28.7
GTEX-XMD1-0011-R2B-SM-4AT5N 60-69 years, male 28.6
GTEX-15DCD-0011-R2b-SM-6LPIE 70-79 years, female 28.5
GTEX-OXRO-0011-R2A-SM-3NB1W 60-69 years, female 28.5
GTEX-1IY9M-0011-R2a-SM-D4P29 60-69 years, male 28.5
GTEX-14BIN-0011-R2a-SM-5S2RJ 50-59 years, female 28.3
GTEX-15EO6-0011-R2a-SM-6M46R 50-59 years, male 28.3
GTEX-12ZZX-0011-R2a-SM-5EGLG 40-49 years, female 28.2
GTEX-132Q8-0011-R2b-SM-5EQ5Z 60-69 years, male 28.2
GTEX-QDT8-0011-R2A-SM-32PKQ 30-39 years, female 28.1
GTEX-13SLX-0011-R2b-SM-5S2VP 50-59 years, female 28.0
GTEX-XLM4-0011-R2B-SM-4AT5Z 60-69 years, male 28.0
GTEX-N7MT-0011-R2a-SM-2I3GI 60-69 years, female 27.9
GTEX-12WSF-0011-R2a-SM-5DUVU 70-79 years, male 27.8
GTEX-131XH-0011-R2b-SM-5DUVY 50-59 years, male 27.5
GTEX-13O3Q-0011-R2b-SM-5KM3K 50-59 years, male 27.5
GTEX-1GN73-0011-R2a-SM-CJI2V 60-69 years, male 27.2
GTEX-13QJC-0011-R2b-SM-5PNUN 60-69 years, female 27.0
GTEX-14JG1-0011-R2a-SM-5ZZVE 40-49 years, male 26.6
GTEX-1I1GV-0011-R2a-SM-ARZLF 60-69 years, male 26.5
GTEX-13X6I-0011-R2b-SM-5PNWQ 60-69 years, male 26.3
GTEX-Z93S-0011-R2a-SM-4RGNG 50-59 years, male 26.1
GTEX-YFC4-0011-R2a-SM-4V6DZ 40-49 years, female 26.0
GTEX-13OVJ-0011-R2b-SM-5L3GP 50-59 years, female 25.6
GTEX-1IKJJ-0011-R2b-SM-ARZLJ 60-69 years, male 25.5
GTEX-13FXS-0011-R2b-SM-5K7XX 50-59 years, male 25.4
GTEX-1HFI6-0011-R2a-SM-CMKH5 40-49 years, male 24.9
GTEX-15CHQ-0011-R2b-SM-6AJAD 60-69 years, male 24.6
GTEX-1313W-0011-R2a-SM-5EGLF 50-59 years, female 24.5
GTEX-14PN4-0011-R2a-SM-6EU2Y 50-59 years, male 24.5
GTEX-N7MS-0011-R2a-SM-2HML6 60-69 years, male 24.3
GTEX-1A3MX-0011-R2b-SM-7EWFL 60-69 years, male 24.1
GTEX-1CB4G-0011-R2a-SM-9QEGQ 60-69 years, male 24.1
GTEX-1B933-0011-R2b-SM-7IGNM 50-59 years, female 23.6
GTEX-14BIM-0011-R2b-SM-69LQ6 60-69 years, female 22.7
GTEX-15RJE-0011-R2b-SM-79OMP 40-49 years, male 22.7
GTEX-NPJ7-0011-R2a-SM-2I3GF 60-69 years, female 22.7
GTEX-T5JC-0011-R2A-SM-32PLZ 20-29 years, male 22.7
GTEX-145LS-0011-R2a-SM-5PNZI 60-69 years, female 22.3
GTEX-NL4W-0011-R2a-SM-2I5GV 50-59 years, male 22.1
GTEX-11DZ1-0011-R2a-SM-DNZZM 50-59 years, male 22.1
GTEX-13OW6-0011-R2a-SM-5L3HG 50-59 years, male 21.9
GTEX-13N2G-0011-R2a-SM-5MR4Q 60-69 years, male 21.7
GTEX-ZAB4-0011-R2a-SM-4RGNP 40-49 years, male 21.5
GTEX-1EMGI-0011-R2b-SM-9OSVS 60-69 years, male 21.4
GTEX-15ER7-0011-R2a-SM-6M46O 20-29 years, female 21.2
GTEX-1HSMO-0011-R2a-SM-CL553 60-69 years, male 19.6
GTEX-14C5O-0011-R2a-SM-5ZZV2 60-69 years, male 19.3
GTEX-WHSE-0011-R2A-SM-3P5ZL 20-29 years, male 19.0
GTEX-NPJ8-0011-R2a-SM-2TC6M 40-49 years, male 18.8
GTEX-X585-0011-R2B-SM-46MVF 50-59 years, male 18.6
GTEX-1HB9E-0011-R2b-SM-A96RW 50-59 years, male 18.4
GTEX-X4XX-0011-R2A-SM-3P623 60-69 years, male 16.3
GTEX-13PDP-0011-R2b-SM-5O9DH 60-69 years, male 15.0
GTEX-13NYS-0011-R2b-SM-5MR4G 60-69 years, male 13.9
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 41.6
FANTOM5 sample id Sample description Scaled Tags Per Million
Substantia nigra
Scaled Tags Per Million: 41.6
FF:10158-103A5 76 years, female 41.6

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 11.5
Pig sample Sample description nTPM
Substantia nigra
nTPM: 11.5
Samples: 4

Max nTPM: 14.1
Min nTPM: 8.9
Sample A Female 14.1
Sample B Female 10.0
Sample C Male 12.9
Sample D Male 8.9

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