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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:25.2 nTPM
GTEx:9.7 nTPM
FANTOM5:24.5 Scaled Tags Per Million
Pig:29.2 nTPM

SUBSTANTIA NIGRA - HPA Brain RNA-seq
Avg nTPM 25.2
Sample id Sample description nTPM
Substantia nigra
nTPM: 25.2
2583 Male, age 75, right hemisphere 37.5
2699 Male, age 18, unknown 36.8
1916 Female, age 42, unknown 29.6
2409 Female, age 72, unknown 25.4
1851 Male, age 51, unknown 24.0
2590 Female, age 75, unknown 23.4
1889 Female, age 72, unknown 21.7
1941 Male, age 53, unknown 20.9
2665 Male, age 74, both hemispheres 16.8
2241 Male, age 72, unknown 15.8

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 9.7
GTEx sample id Sample description nTPM
Brain - Substantia nigra
Average nTPM: 9.7
Samples: 139

Max nTPM: 54.8
Min nTPM: 0.4
Std nTPM: 8.7
Median nTPM: 7.4
GTEX-1B996-0011-R2a-SM-7IGON 60-69 years, male 54.8
GTEX-13SLW-0011-R2b-SM-5O9C6 70-79 years, male 50.2
GTEX-13X6K-0011-R2b-SM-5P9K3 60-69 years, female 39.0
GTEX-14BIM-0011-R2b-SM-69LQ6 60-69 years, female 35.2
GTEX-11GSP-0011-R2b-SM-9QEGE 60-69 years, female 28.1
GTEX-13NYS-0011-R2b-SM-5MR4G 60-69 years, male 27.1
GTEX-15EO6-0011-R2a-SM-6M46R 50-59 years, male 25.0
GTEX-1EKGG-0011-R2a-SM-CE6R8 60-69 years, male 22.6
GTEX-1F6I4-0011-R2a-SM-CL536 60-69 years, male 22.3
GTEX-1LVAO-0011-R2a-SM-EYYX1 60-69 years, male 22.0
GTEX-13CF2-0011-R2a-SM-5L3DC 60-69 years, male 21.3
GTEX-11UD1-0011-R2b-SM-5BC6O 40-49 years, female 21.1
GTEX-1J1OQ-0011-R2b-SM-ARU88 40-49 years, female 20.5
GTEX-13RTJ-0011-R2a-SM-5PNW9 60-69 years, male 20.2
GTEX-1GTWX-0011-R2b-SM-ADEH5 60-69 years, male 20.0
GTEX-14JG1-0011-R2a-SM-5ZZVE 40-49 years, male 19.7
GTEX-1B8SG-0011-R2b-SM-79OOT 50-59 years, male 19.2
GTEX-1H3VE-0011-R2a-SM-CE6SA 40-49 years, male 18.9
GTEX-14C5O-0011-R2a-SM-5ZZV2 60-69 years, male 18.7
GTEX-1GZ2Q-0011-R2b-SM-9OSWO 40-49 years, male 18.2
GTEX-1LSNL-0011-R2a-SM-EZ6MK 50-59 years, male 17.9
GTEX-13OVJ-0011-R2b-SM-5L3GP 50-59 years, female 17.8
GTEX-14BIN-0011-R2a-SM-5S2RJ 50-59 years, female 17.5
GTEX-1RLM8-0011-R2a-SM-EZ6N4 50-59 years, male 16.5
GTEX-1A3MX-0011-R2b-SM-7EWFL 60-69 years, male 16.1
GTEX-13N2G-0011-R2a-SM-5MR4Q 60-69 years, male 15.7
GTEX-13FXS-0011-R2b-SM-5K7XX 50-59 years, male 14.4
GTEX-ZDXO-0011-R2b-SM-4WKFG 60-69 years, male 14.2
GTEX-145LS-0011-R2a-SM-5PNZI 60-69 years, female 13.5
GTEX-15RJE-0011-R2b-SM-79OMP 40-49 years, male 13.1
GTEX-1MA7X-0011-R2b-SM-EZ6MT 60-69 years, male 12.6
GTEX-1CB4G-0011-R2a-SM-9QEGQ 60-69 years, male 12.4
GTEX-1399T-0011-R2b-SM-5DUXM 60-69 years, male 12.1
GTEX-15DYW-0011-R2b-SM-7KUKY 60-69 years, female 12.1
GTEX-ZV68-0011-R2a-SM-4YCDK 50-59 years, female 12.1
GTEX-11GS4-0011-R2a-SM-DO942 60-69 years, male 12.1
GTEX-S7SE-0011-R2A-SM-2XCDC 50-59 years, male 11.9
GTEX-QMR6-0011-R2A-SM-32PKV 50-59 years, male 11.8
GTEX-11WQC-0011-R2a-SM-DO927 60-69 years, male 11.7
GTEX-1I1GV-0011-R2a-SM-ARZLF 60-69 years, male 11.7
GTEX-1H3O1-0011-R2b-SM-CKZOT 60-69 years, male 11.5
GTEX-14ASI-0011-R2b-SM-5YY9H 60-69 years, male 11.4
GTEX-WHSE-0011-R2A-SM-3P5ZL 20-29 years, male 11.2
GTEX-13OW8-0011-R2a-SM-5L3G2 60-69 years, male 10.8
GTEX-1C6VR-0011-R2a-SM-7RHGZ 60-69 years, male 10.8
GTEX-1F6IF-0011-R2b-SM-9QEHB 60-69 years, male 10.8
GTEX-15CHQ-0011-R2b-SM-6AJAD 60-69 years, male 10.7
GTEX-1GMR8-0011-R2a-SM-CE6RD 50-59 years, female 10.6
GTEX-1B8L1-0011-R2a-SM-9OSVL 60-69 years, male 10.5
GTEX-1I1GS-0011-R2b-SM-CMKHG 60-69 years, male 10.4
GTEX-12ZZX-0011-R2a-SM-5EGLG 40-49 years, female 10.3
GTEX-13O3O-0011-R2b-SM-5P9H1 60-69 years, female 9.9
GTEX-PWO3-0011-R2A-SM-2S1OX 60-69 years, female 9.8
GTEX-1GN2E-0011-R2a-SM-9WG7D 60-69 years, male 9.8
GTEX-12WSH-0011-R2a-SM-5GU68 50-59 years, male 9.7
GTEX-11GSO-0011-R2a-SM-57WDF 60-69 years, male 9.2
GTEX-15DCD-0011-R2b-SM-6LPIE 70-79 years, female 9.2
GTEX-147GR-0011-R2b-SM-5S2RQ 60-69 years, male 8.9
GTEX-17EVP-0011-R2a-SM-7LG4W 40-49 years, male 8.9
GTEX-1EU9M-0011-R2b-SM-9QEH7 60-69 years, male 8.9
GTEX-RU72-0011-R2A-SM-2TF6O 50-59 years, female 8.8
GTEX-14PN4-0011-R2a-SM-6EU2Y 50-59 years, male 8.7
GTEX-1JMQK-0011-R2a-SM-EYYXQ 60-69 years, male 8.7
GTEX-132Q8-0011-R2b-SM-5EQ5Z 60-69 years, male 8.1
GTEX-13O3Q-0011-R2b-SM-5KM3K 50-59 years, male 8.1
GTEX-1B933-0011-R2b-SM-7IGNM 50-59 years, female 7.9
GTEX-17HG3-0011-R2a-SM-7MGVX 30-39 years, female 7.8
GTEX-16Z82-0011-R2b-SM-79OK9 60-69 years, male 7.5
GTEX-T6MN-0011-R2A-SM-32QOW 50-59 years, male 7.5
GTEX-15ER7-0011-R2a-SM-6M46O 20-29 years, female 7.4
GTEX-11ZTS-0011-R2b-SM-5BC75 60-69 years, female 7.2
GTEX-1H1ZS-0011-R2b-SM-CL54Q 70-79 years, male 6.9
GTEX-13OW6-0011-R2a-SM-5L3HG 50-59 years, male 6.6
GTEX-1GN73-0011-R2a-SM-CJI2V 60-69 years, male 6.6
GTEX-R55E-0011-R2A-SM-EYYV9 20-29 years, male 6.6
GTEX-XLM4-0011-R2B-SM-4AT5Z 60-69 years, male 6.0
GTEX-1LVA9-0011-R2a-SM-EZ6MJ 50-59 years, male 6.0
GTEX-YFC4-0011-R2a-SM-4V6DZ 40-49 years, female 5.9
GTEX-13G51-0011-R2b-SM-5LZXS 60-69 years, male 5.6
GTEX-X585-0011-R2B-SM-46MVF 50-59 years, male 5.5
GTEX-1IGQW-0011-R2b-SM-D4P26 60-69 years, male 5.5
GTEX-ZAB4-0011-R2a-SM-4RGNP 40-49 years, male 5.4
GTEX-1E1VI-0011-R2a-SM-9QEGS 50-59 years, male 5.4
GTEX-13SLX-0011-R2b-SM-5S2VP 50-59 years, female 5.2
GTEX-11TUW-0011-R2b-SM-DO92T 60-69 years, male 5.2
GTEX-1LB8K-0011-R2a-SM-EZ6MQ 50-59 years, male 5.2
GTEX-13QJC-0011-R2b-SM-5PNUN 60-69 years, female 5.1
GTEX-11PRG-0011-R2a-SM-69LQ5 50-59 years, male 4.9
GTEX-1313W-0011-R2a-SM-5EGLF 50-59 years, female 4.9
GTEX-NL4W-0011-R2a-SM-2I5GV 50-59 years, male 4.8
GTEX-1F48J-0011-R2a-SM-CL535 50-59 years, female 4.7
GTEX-12WSA-0011-R2a-SM-57WDK 60-69 years, male 4.6
GTEX-13NYB-0011-R2a-SM-5MR3C 40-49 years, male 4.5
GTEX-T2IS-0011-R2A-SM-32QPF 20-29 years, female 4.5
GTEX-1IKJJ-0011-R2b-SM-ARZLJ 60-69 years, male 4.5
GTEX-18464-0011-R2a-SM-731AL 50-59 years, male 4.4
GTEX-QDT8-0011-R2A-SM-32PKQ 30-39 years, female 4.4
GTEX-1HFI6-0011-R2a-SM-CMKH5 40-49 years, male 4.4
GTEX-P44G-0011-R2A-SM-2XCD2 30-39 years, male 4.3
GTEX-1EMGI-0011-R2b-SM-9OSVS 60-69 years, male 4.3
GTEX-12WSF-0011-R2a-SM-5DUVU 70-79 years, male 4.2
GTEX-1HR98-0011-R2a-SM-ARL7A 60-69 years, male 4.2
GTEX-YJ89-0011-R2b-SM-4RGLT 60-69 years, male 4.1
GTEX-1H1DG-0011-R2a-SM-ADEIQ 70-79 years, male 4.1
GTEX-14PJO-0011-R2a-SM-5ZZVF 60-69 years, male 4.0
GTEX-12WSD-0011-R2a-SM-5LZWB 60-69 years, female 3.9
GTEX-131XH-0011-R2b-SM-5DUVY 50-59 years, male 3.7
GTEX-1IL2U-0011-R2a-SM-ARU6V 60-69 years, male 3.7
GTEX-1445S-0011-R2b-SM-5PNUH 60-69 years, male 3.5
GTEX-139TS-0011-R2b-SM-5J1MX 60-69 years, male 3.3
GTEX-13X6I-0011-R2b-SM-5PNWQ 60-69 years, male 3.2
GTEX-N7MT-0011-R2a-SM-2I3GI 60-69 years, female 3.2
GTEX-1LH75-0011-R2b-SM-EYYWQ 50-59 years, female 3.2
GTEX-1A8G7-0011-R2a-SM-7IGQI 60-69 years, male 2.9
GTEX-1J8Q2-0011-R2b-SM-EAZ2X 60-69 years, male 2.9
GTEX-T5JC-0011-R2A-SM-32PLZ 20-29 years, male 2.8
GTEX-13PDP-0011-R2b-SM-5O9DH 60-69 years, male 2.7
GTEX-NPJ7-0011-R2a-SM-2I3GF 60-69 years, female 2.7
GTEX-1F75B-0011-R2a-SM-ARL8I 50-59 years, male 2.7
GTEX-1IY9M-0011-R2a-SM-D4P29 60-69 years, male 2.7
GTEX-NPJ8-0011-R2a-SM-2TC6M 40-49 years, male 2.6
GTEX-1HB9E-0011-R2b-SM-A96RW 50-59 years, male 2.6
GTEX-1I1CD-0011-R2a-SM-CM2T3 60-69 years, female 2.5
GTEX-OXRO-0011-R2A-SM-3NB1W 60-69 years, female 2.3
GTEX-1HSMO-0011-R2a-SM-CL553 60-69 years, male 2.3
GTEX-1HT8W-0011-R2a-SM-CMKH9 30-39 years, male 2.3
GTEX-UTHO-0011-R2A-SM-3GIKC 60-69 years, male 2.2
GTEX-X4XX-0011-R2A-SM-3P623 60-69 years, male 1.9
GTEX-Q2AG-0011-R2A-SM-2HMIT 40-49 years, female 1.5
GTEX-1H23P-0011-R2a-SM-CKZP3 60-69 years, male 1.4
GTEX-1GN1U-0011-R2a-SM-CL53A 50-59 years, female 1.3
GTEX-1IKOH-0011-R2a-SM-CMKHO 60-69 years, female 1.3
GTEX-OHPN-0011-R2A-SM-2I5FB 60-69 years, female 1.2
GTEX-ZE9C-0011-R2a-SM-4WKGH 60-69 years, male 1.2
GTEX-N7MS-0011-R2a-SM-2HML6 60-69 years, male 1.0
GTEX-XMD1-0011-R2B-SM-4AT5N 60-69 years, male 1.0
GTEX-11EMC-0011-R2b-SM-DO114 60-69 years, female 0.9
GTEX-Z93S-0011-R2a-SM-4RGNG 50-59 years, male 0.4
GTEX-11DZ1-0011-R2a-SM-DNZZM 50-59 years, male 0.4
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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 24.5
FANTOM5 sample id Sample description Scaled Tags Per Million
Substantia nigra
Scaled Tags Per Million: 24.5
FF:10158-103A5 76 years, female 24.5

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 29.2
Pig sample Sample description nTPM
Substantia nigra
nTPM: 29.3
Samples: 4

Max nTPM: 31.2
Min nTPM: 26.8
Sample A Female 29.9
Sample B Female 29.1
Sample C Male 26.8
Sample D Male 31.2

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