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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:105.8 nTPM
GTEx:236.7 nTPM
FANTOM5:487.8 Scaled Tags Per Million
Pig:192.7 nTPM

SUBSTANTIA NIGRA - HPA Brain RNA-seq
Avg nTPM 105.8
Sample id Sample description nTPM
Substantia nigra
nTPM: 105.8
2583 Male, age 75, right hemisphere 117.4
2590 Female, age 75, unknown 111.3
1851 Male, age 51, unknown 110.6
1941 Male, age 53, unknown 109.3
1889 Female, age 72, unknown 108.5
2699 Male, age 18, unknown 106.6
1916 Female, age 42, unknown 102.3
2409 Female, age 72, unknown 99.3
2665 Male, age 74, both hemispheres 98.9
2241 Male, age 72, unknown 94.5

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 236.7
GTEx sample id Sample description nTPM
Brain - Substantia nigra
Average nTPM: 236.7
Samples: 139

Max nTPM: 601.7
Min nTPM: 106.4
Std nTPM: 88.2
Median nTPM: 218.2
GTEX-ZE9C-0011-R2a-SM-4WKGH 60-69 years, male 601.7
GTEX-1LB8K-0011-R2a-SM-EZ6MQ 50-59 years, male 542.0
GTEX-13NYB-0011-R2a-SM-5MR3C 40-49 years, male 509.3
GTEX-1LVA9-0011-R2a-SM-EZ6MJ 50-59 years, male 497.2
GTEX-NPJ7-0011-R2a-SM-2I3GF 60-69 years, female 425.0
GTEX-N7MT-0011-R2a-SM-2I3GI 60-69 years, female 413.8
GTEX-Q2AG-0011-R2A-SM-2HMIT 40-49 years, female 402.8
GTEX-1H1DG-0011-R2a-SM-ADEIQ 70-79 years, male 394.6
GTEX-ZAB4-0011-R2a-SM-4RGNP 40-49 years, male 392.7
GTEX-1IKOH-0011-R2a-SM-CMKHO 60-69 years, female 383.1
GTEX-1A8G7-0011-R2a-SM-7IGQI 60-69 years, male 368.6
GTEX-X4XX-0011-R2A-SM-3P623 60-69 years, male 366.1
GTEX-1HR98-0011-R2a-SM-ARL7A 60-69 years, male 362.8
GTEX-1GN1U-0011-R2a-SM-CL53A 50-59 years, female 357.2
GTEX-1F75B-0011-R2a-SM-ARL8I 50-59 years, male 346.9
GTEX-1B8SG-0011-R2b-SM-79OOT 50-59 years, male 344.5
GTEX-1I1CD-0011-R2a-SM-CM2T3 60-69 years, female 337.4
GTEX-139TS-0011-R2b-SM-5J1MX 60-69 years, male 331.3
GTEX-12WSH-0011-R2a-SM-5GU68 50-59 years, male 327.0
GTEX-1GTWX-0011-R2b-SM-ADEH5 60-69 years, male 319.8
GTEX-UTHO-0011-R2A-SM-3GIKC 60-69 years, male 318.9
GTEX-OXRO-0011-R2A-SM-3NB1W 60-69 years, female 317.3
GTEX-1J8Q2-0011-R2b-SM-EAZ2X 60-69 years, male 315.7
GTEX-1IY9M-0011-R2a-SM-D4P29 60-69 years, male 314.4
GTEX-T5JC-0011-R2A-SM-32PLZ 20-29 years, male 308.7
GTEX-P44G-0011-R2A-SM-2XCD2 30-39 years, male 300.6
GTEX-YFC4-0011-R2a-SM-4V6DZ 40-49 years, female 293.6
GTEX-11UD1-0011-R2b-SM-5BC6O 40-49 years, female 292.2
GTEX-1HSMO-0011-R2a-SM-CL553 60-69 years, male 291.6
GTEX-17HG3-0011-R2a-SM-7MGVX 30-39 years, female 289.7
GTEX-ZDXO-0011-R2b-SM-4WKFG 60-69 years, male 285.5
GTEX-11EMC-0011-R2b-SM-DO114 60-69 years, female 284.5
GTEX-ZV68-0011-R2a-SM-4YCDK 50-59 years, female 284.0
GTEX-18464-0011-R2a-SM-731AL 50-59 years, male 281.1
GTEX-1F48J-0011-R2a-SM-CL535 50-59 years, female 278.9
GTEX-1IGQW-0011-R2b-SM-D4P26 60-69 years, male 275.3
GTEX-1H3O1-0011-R2b-SM-CKZOT 60-69 years, male 271.5
GTEX-17EVP-0011-R2a-SM-7LG4W 40-49 years, male 269.6
GTEX-12WSD-0011-R2a-SM-5LZWB 60-69 years, female 268.8
GTEX-NL4W-0011-R2a-SM-2I5GV 50-59 years, male 266.7
GTEX-147GR-0011-R2b-SM-5S2RQ 60-69 years, male 264.2
GTEX-T2IS-0011-R2A-SM-32QPF 20-29 years, female 263.2
GTEX-N7MS-0011-R2a-SM-2HML6 60-69 years, male 262.4
GTEX-1MA7X-0011-R2b-SM-EZ6MT 60-69 years, male 261.7
GTEX-WHSE-0011-R2A-SM-3P5ZL 20-29 years, male 258.8
GTEX-S7SE-0011-R2A-SM-2XCDC 50-59 years, male 258.7
GTEX-11ZTS-0011-R2b-SM-5BC75 60-69 years, female 258.4
GTEX-131XH-0011-R2b-SM-5DUVY 50-59 years, male 258.4
GTEX-1I1GS-0011-R2b-SM-CMKHG 60-69 years, male 257.2
GTEX-132Q8-0011-R2b-SM-5EQ5Z 60-69 years, male 254.5
GTEX-11PRG-0011-R2a-SM-69LQ5 50-59 years, male 251.6
GTEX-1GN2E-0011-R2a-SM-9WG7D 60-69 years, male 250.3
GTEX-YJ89-0011-R2b-SM-4RGLT 60-69 years, male 247.2
GTEX-1I1GV-0011-R2a-SM-ARZLF 60-69 years, male 246.5
GTEX-1HFI6-0011-R2a-SM-CMKH5 40-49 years, male 244.2
GTEX-1JMQK-0011-R2a-SM-EYYXQ 60-69 years, male 243.6
GTEX-XMD1-0011-R2B-SM-4AT5N 60-69 years, male 239.9
GTEX-1IKJJ-0011-R2b-SM-ARZLJ 60-69 years, male 239.8
GTEX-11DZ1-0011-R2a-SM-DNZZM 50-59 years, male 238.7
GTEX-13O3O-0011-R2b-SM-5P9H1 60-69 years, female 237.1
GTEX-11GS4-0011-R2a-SM-DO942 60-69 years, male 232.9
GTEX-11WQC-0011-R2a-SM-DO927 60-69 years, male 229.1
GTEX-14JG1-0011-R2a-SM-5ZZVE 40-49 years, male 228.8
GTEX-XLM4-0011-R2B-SM-4AT5Z 60-69 years, male 226.1
GTEX-PWO3-0011-R2A-SM-2S1OX 60-69 years, female 223.0
GTEX-1IL2U-0011-R2a-SM-ARU6V 60-69 years, male 222.6
GTEX-13X6I-0011-R2b-SM-5PNWQ 60-69 years, male 222.5
GTEX-1F6IF-0011-R2b-SM-9QEHB 60-69 years, male 221.2
GTEX-1GN73-0011-R2a-SM-CJI2V 60-69 years, male 219.1
GTEX-14C5O-0011-R2a-SM-5ZZV2 60-69 years, male 218.2
GTEX-13PDP-0011-R2b-SM-5O9DH 60-69 years, male 217.4
GTEX-RU72-0011-R2A-SM-2TF6O 50-59 years, female 215.5
GTEX-1EU9M-0011-R2b-SM-9QEH7 60-69 years, male 214.7
GTEX-14ASI-0011-R2b-SM-5YY9H 60-69 years, male 214.3
GTEX-13N2G-0011-R2a-SM-5MR4Q 60-69 years, male 213.9
GTEX-13CF2-0011-R2a-SM-5L3DC 60-69 years, male 212.7
GTEX-1B996-0011-R2a-SM-7IGON 60-69 years, male 211.0
GTEX-1CB4G-0011-R2a-SM-9QEGQ 60-69 years, male 210.5
GTEX-1E1VI-0011-R2a-SM-9QEGS 50-59 years, male 210.5
GTEX-1RLM8-0011-R2a-SM-EZ6N4 50-59 years, male 208.4
GTEX-11GSO-0011-R2a-SM-57WDF 60-69 years, male 206.3
GTEX-11TUW-0011-R2b-SM-DO92T 60-69 years, male 206.0
GTEX-T6MN-0011-R2A-SM-32QOW 50-59 years, male 205.2
GTEX-16Z82-0011-R2b-SM-79OK9 60-69 years, male 197.8
GTEX-14PJO-0011-R2a-SM-5ZZVF 60-69 years, male 196.5
GTEX-1445S-0011-R2b-SM-5PNUH 60-69 years, male 196.2
GTEX-Z93S-0011-R2a-SM-4RGNG 50-59 years, male 193.3
GTEX-1H1ZS-0011-R2b-SM-CL54Q 70-79 years, male 193.0
GTEX-1EMGI-0011-R2b-SM-9OSVS 60-69 years, male 190.4
GTEX-14BIN-0011-R2a-SM-5S2RJ 50-59 years, female 190.3
GTEX-1LVAO-0011-R2a-SM-EYYX1 60-69 years, male 190.2
GTEX-1GZ2Q-0011-R2b-SM-9OSWO 40-49 years, male 186.4
GTEX-13QJC-0011-R2b-SM-5PNUN 60-69 years, female 184.5
GTEX-13X6K-0011-R2b-SM-5P9K3 60-69 years, female 183.0
GTEX-13OW8-0011-R2a-SM-5L3G2 60-69 years, male 182.7
GTEX-1H23P-0011-R2a-SM-CKZP3 60-69 years, male 180.5
GTEX-1C6VR-0011-R2a-SM-7RHGZ 60-69 years, male 179.1
GTEX-R55E-0011-R2A-SM-EYYV9 20-29 years, male 178.8
GTEX-13O3Q-0011-R2b-SM-5KM3K 50-59 years, male 176.9
GTEX-12WSA-0011-R2a-SM-57WDK 60-69 years, male 176.6
GTEX-1LSNL-0011-R2a-SM-EZ6MK 50-59 years, male 176.1
GTEX-15CHQ-0011-R2b-SM-6AJAD 60-69 years, male 174.2
GTEX-13RTJ-0011-R2a-SM-5PNW9 60-69 years, male 172.3
GTEX-OHPN-0011-R2A-SM-2I5FB 60-69 years, female 169.2
GTEX-145LS-0011-R2a-SM-5PNZI 60-69 years, female 168.0
GTEX-1F6I4-0011-R2a-SM-CL536 60-69 years, male 168.0
GTEX-1HT8W-0011-R2a-SM-CMKH9 30-39 years, male 167.4
GTEX-13SLX-0011-R2b-SM-5S2VP 50-59 years, female 167.2
GTEX-X585-0011-R2B-SM-46MVF 50-59 years, male 165.8
GTEX-1B933-0011-R2b-SM-7IGNM 50-59 years, female 165.5
GTEX-1J1OQ-0011-R2b-SM-ARU88 40-49 years, female 164.9
GTEX-15ER7-0011-R2a-SM-6M46O 20-29 years, female 160.4
GTEX-1GMR8-0011-R2a-SM-CE6RD 50-59 years, female 158.6
GTEX-13SLW-0011-R2b-SM-5O9C6 70-79 years, male 158.0
GTEX-15RJE-0011-R2b-SM-79OMP 40-49 years, male 157.7
GTEX-1H3VE-0011-R2a-SM-CE6SA 40-49 years, male 157.4
GTEX-15DCD-0011-R2b-SM-6LPIE 70-79 years, female 155.7
GTEX-1313W-0011-R2a-SM-5EGLF 50-59 years, female 153.3
GTEX-1EKGG-0011-R2a-SM-CE6R8 60-69 years, male 153.2
GTEX-1HB9E-0011-R2b-SM-A96RW 50-59 years, male 153.2
GTEX-13OW6-0011-R2a-SM-5L3HG 50-59 years, male 152.9
GTEX-12ZZX-0011-R2a-SM-5EGLG 40-49 years, female 152.7
GTEX-13NYS-0011-R2b-SM-5MR4G 60-69 years, male 152.5
GTEX-15DYW-0011-R2b-SM-7KUKY 60-69 years, female 151.0
GTEX-13G51-0011-R2b-SM-5LZXS 60-69 years, male 150.1
GTEX-13FXS-0011-R2b-SM-5K7XX 50-59 years, male 149.3
GTEX-13OVJ-0011-R2b-SM-5L3GP 50-59 years, female 147.2
GTEX-12WSF-0011-R2a-SM-5DUVU 70-79 years, male 144.7
GTEX-14BIM-0011-R2b-SM-69LQ6 60-69 years, female 143.0
GTEX-11GSP-0011-R2b-SM-9QEGE 60-69 years, female 139.4
GTEX-1A3MX-0011-R2b-SM-7EWFL 60-69 years, male 133.3
GTEX-1B8L1-0011-R2a-SM-9OSVL 60-69 years, male 132.9
GTEX-QMR6-0011-R2A-SM-32PKV 50-59 years, male 131.7
GTEX-1399T-0011-R2b-SM-5DUXM 60-69 years, male 131.0
GTEX-1LH75-0011-R2b-SM-EYYWQ 50-59 years, female 127.8
GTEX-14PN4-0011-R2a-SM-6EU2Y 50-59 years, male 119.5
GTEX-15EO6-0011-R2a-SM-6M46R 50-59 years, male 118.4
GTEX-NPJ8-0011-R2a-SM-2TC6M 40-49 years, male 110.4
GTEX-QDT8-0011-R2A-SM-32PKQ 30-39 years, female 106.4
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 487.8
FANTOM5 sample id Sample description Scaled Tags Per Million
Substantia nigra
Scaled Tags Per Million: 487.8
FF:10158-103A5 76 years, female 487.8

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 192.7
Pig sample Sample description nTPM
Substantia nigra
nTPM: 192.7
Samples: 4

Max nTPM: 244.2
Min nTPM: 124.8
Sample A Female 225.7
Sample B Female 124.8
Sample C Male 176.0
Sample D Male 244.2

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The Human Protein Atlas project is funded
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