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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:238.4 nTPM
GTEx:278.7 nTPM
FANTOM5:510.0 Scaled Tags Per Million
Pig:90.4 nTPM

SUBSTANTIA NIGRA - HPA Brain RNA-seq
Avg nTPM 238.4
Sample id Sample description nTPM
Substantia nigra
nTPM: 238.4
2699 Male, age 18, unknown 249.9
1851 Male, age 51, unknown 246.6
1889 Female, age 72, unknown 240.3
2665 Male, age 74, both hemispheres 239.4
1916 Female, age 42, unknown 239.2
2590 Female, age 75, unknown 238.8
2241 Male, age 72, unknown 238.3
2409 Female, age 72, unknown 237.7
1941 Male, age 53, unknown 229.2
2583 Male, age 75, right hemisphere 224.6

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 278.7
GTEx sample id Sample description nTPM
Brain - Substantia nigra
Average nTPM: 278.7
Samples: 139

Max nTPM: 500.0
Min nTPM: 141.0
Std nTPM: 60.7
Median nTPM: 271.7
GTEX-1H1ZS-0011-R2b-SM-CL54Q 70-79 years, male 500.0
GTEX-1LVA9-0011-R2a-SM-EZ6MJ 50-59 years, male 429.2
GTEX-1H23P-0011-R2a-SM-CKZP3 60-69 years, male 423.0
GTEX-13NYB-0011-R2a-SM-5MR3C 40-49 years, male 417.3
GTEX-1LVAO-0011-R2a-SM-EYYX1 60-69 years, male 401.5
GTEX-1B8SG-0011-R2b-SM-79OOT 50-59 years, male 401.2
GTEX-1IGQW-0011-R2b-SM-D4P26 60-69 years, male 399.6
GTEX-1JMQK-0011-R2a-SM-EYYXQ 60-69 years, male 379.1
GTEX-1GZ2Q-0011-R2b-SM-9OSWO 40-49 years, male 377.9
GTEX-1GN2E-0011-R2a-SM-9WG7D 60-69 years, male 375.1
GTEX-UTHO-0011-R2A-SM-3GIKC 60-69 years, male 374.8
GTEX-1HR98-0011-R2a-SM-ARL7A 60-69 years, male 368.4
GTEX-13OVJ-0011-R2b-SM-5L3GP 50-59 years, female 368.1
GTEX-NPJ7-0011-R2a-SM-2I3GF 60-69 years, female 366.0
GTEX-1LB8K-0011-R2a-SM-EZ6MQ 50-59 years, male 361.8
GTEX-N7MT-0011-R2a-SM-2I3GI 60-69 years, female 359.4
GTEX-12WSH-0011-R2a-SM-5GU68 50-59 years, male 352.8
GTEX-1A8G7-0011-R2a-SM-7IGQI 60-69 years, male 351.7
GTEX-1C6VR-0011-R2a-SM-7RHGZ 60-69 years, male 349.0
GTEX-1F75B-0011-R2a-SM-ARL8I 50-59 years, male 349.0
GTEX-1J1OQ-0011-R2b-SM-ARU88 40-49 years, female 348.1
GTEX-YJ89-0011-R2b-SM-4RGLT 60-69 years, male 347.8
GTEX-13X6K-0011-R2b-SM-5P9K3 60-69 years, female 346.5
GTEX-1F48J-0011-R2a-SM-CL535 50-59 years, female 336.1
GTEX-YFC4-0011-R2a-SM-4V6DZ 40-49 years, female 333.2
GTEX-1I1GS-0011-R2b-SM-CMKHG 60-69 years, male 328.2
GTEX-1H3O1-0011-R2b-SM-CKZOT 60-69 years, male 326.5
GTEX-1GN1U-0011-R2a-SM-CL53A 50-59 years, female 326.1
GTEX-132Q8-0011-R2b-SM-5EQ5Z 60-69 years, male 325.4
GTEX-ZV68-0011-R2a-SM-4YCDK 50-59 years, female 321.1
GTEX-11EMC-0011-R2b-SM-DO114 60-69 years, female 321.0
GTEX-11TUW-0011-R2b-SM-DO92T 60-69 years, male 320.7
GTEX-1H3VE-0011-R2a-SM-CE6SA 40-49 years, male 319.0
GTEX-1RLM8-0011-R2a-SM-EZ6N4 50-59 years, male 318.0
GTEX-ZDXO-0011-R2b-SM-4WKFG 60-69 years, male 317.4
GTEX-1EU9M-0011-R2b-SM-9QEH7 60-69 years, male 317.4
GTEX-1GTWX-0011-R2b-SM-ADEH5 60-69 years, male 316.6
GTEX-13CF2-0011-R2a-SM-5L3DC 60-69 years, male 316.1
GTEX-X4XX-0011-R2A-SM-3P623 60-69 years, male 305.4
GTEX-R55E-0011-R2A-SM-EYYV9 20-29 years, male 305.2
GTEX-1IKOH-0011-R2a-SM-CMKHO 60-69 years, female 304.6
GTEX-Q2AG-0011-R2A-SM-2HMIT 40-49 years, female 304.5
GTEX-13SLW-0011-R2b-SM-5O9C6 70-79 years, male 303.9
GTEX-PWO3-0011-R2A-SM-2S1OX 60-69 years, female 303.1
GTEX-1B996-0011-R2a-SM-7IGON 60-69 years, male 302.8
GTEX-1IL2U-0011-R2a-SM-ARU6V 60-69 years, male 299.6
GTEX-ZAB4-0011-R2a-SM-4RGNP 40-49 years, male 298.3
GTEX-QMR6-0011-R2A-SM-32PKV 50-59 years, male 297.2
GTEX-1H1DG-0011-R2a-SM-ADEIQ 70-79 years, male 295.4
GTEX-12WSD-0011-R2a-SM-5LZWB 60-69 years, female 292.8
GTEX-OXRO-0011-R2A-SM-3NB1W 60-69 years, female 292.3
GTEX-1IY9M-0011-R2a-SM-D4P29 60-69 years, male 291.3
GTEX-11GS4-0011-R2a-SM-DO942 60-69 years, male 289.0
GTEX-OHPN-0011-R2A-SM-2I5FB 60-69 years, female 285.7
GTEX-ZE9C-0011-R2a-SM-4WKGH 60-69 years, male 284.7
GTEX-13OW8-0011-R2a-SM-5L3G2 60-69 years, male 283.8
GTEX-1LSNL-0011-R2a-SM-EZ6MK 50-59 years, male 283.8
GTEX-11UD1-0011-R2b-SM-5BC6O 40-49 years, female 283.7
GTEX-11PRG-0011-R2a-SM-69LQ5 50-59 years, male 281.5
GTEX-139TS-0011-R2b-SM-5J1MX 60-69 years, male 281.4
GTEX-1I1CD-0011-R2a-SM-CM2T3 60-69 years, female 280.7
GTEX-15EO6-0011-R2a-SM-6M46R 50-59 years, male 279.3
GTEX-17HG3-0011-R2a-SM-7MGVX 30-39 years, female 278.6
GTEX-11ZTS-0011-R2b-SM-5BC75 60-69 years, female 276.4
GTEX-13X6I-0011-R2b-SM-5PNWQ 60-69 years, male 276.4
GTEX-NPJ8-0011-R2a-SM-2TC6M 40-49 years, male 275.9
GTEX-131XH-0011-R2b-SM-5DUVY 50-59 years, male 275.4
GTEX-1J8Q2-0011-R2b-SM-EAZ2X 60-69 years, male 273.2
GTEX-14BIM-0011-R2b-SM-69LQ6 60-69 years, female 272.5
GTEX-13PDP-0011-R2b-SM-5O9DH 60-69 years, male 271.7
GTEX-14PJO-0011-R2a-SM-5ZZVF 60-69 years, male 271.5
GTEX-12WSA-0011-R2a-SM-57WDK 60-69 years, male 269.6
GTEX-1F6IF-0011-R2b-SM-9QEHB 60-69 years, male 269.4
GTEX-NL4W-0011-R2a-SM-2I5GV 50-59 years, male 268.9
GTEX-12WSF-0011-R2a-SM-5DUVU 70-79 years, male 264.6
GTEX-T5JC-0011-R2A-SM-32PLZ 20-29 years, male 264.3
GTEX-XMD1-0011-R2B-SM-4AT5N 60-69 years, male 263.8
GTEX-13QJC-0011-R2b-SM-5PNUN 60-69 years, female 263.6
GTEX-14C5O-0011-R2a-SM-5ZZV2 60-69 years, male 262.9
GTEX-1E1VI-0011-R2a-SM-9QEGS 50-59 years, male 259.5
GTEX-1MA7X-0011-R2b-SM-EZ6MT 60-69 years, male 258.0
GTEX-P44G-0011-R2A-SM-2XCD2 30-39 years, male 254.8
GTEX-T2IS-0011-R2A-SM-32QPF 20-29 years, female 252.0
GTEX-1EKGG-0011-R2a-SM-CE6R8 60-69 years, male 251.2
GTEX-13NYS-0011-R2b-SM-5MR4G 60-69 years, male 250.7
GTEX-15RJE-0011-R2b-SM-79OMP 40-49 years, male 249.7
GTEX-XLM4-0011-R2B-SM-4AT5Z 60-69 years, male 247.7
GTEX-18464-0011-R2a-SM-731AL 50-59 years, male 247.5
GTEX-S7SE-0011-R2A-SM-2XCDC 50-59 years, male 247.5
GTEX-14PN4-0011-R2a-SM-6EU2Y 50-59 years, male 247.4
GTEX-13O3O-0011-R2b-SM-5P9H1 60-69 years, female 247.1
GTEX-1HSMO-0011-R2a-SM-CL553 60-69 years, male 246.6
GTEX-1GMR8-0011-R2a-SM-CE6RD 50-59 years, female 245.4
GTEX-1I1GV-0011-R2a-SM-ARZLF 60-69 years, male 245.2
GTEX-1A3MX-0011-R2b-SM-7EWFL 60-69 years, male 244.9
GTEX-WHSE-0011-R2A-SM-3P5ZL 20-29 years, male 244.8
GTEX-11WQC-0011-R2a-SM-DO927 60-69 years, male 243.7
GTEX-11GSP-0011-R2b-SM-9QEGE 60-69 years, female 243.6
GTEX-11GSO-0011-R2a-SM-57WDF 60-69 years, male 242.2
GTEX-1EMGI-0011-R2b-SM-9OSVS 60-69 years, male 240.6
GTEX-13RTJ-0011-R2a-SM-5PNW9 60-69 years, male 240.0
GTEX-14ASI-0011-R2b-SM-5YY9H 60-69 years, male 239.2
GTEX-N7MS-0011-R2a-SM-2HML6 60-69 years, male 238.5
GTEX-1CB4G-0011-R2a-SM-9QEGQ 60-69 years, male 237.9
GTEX-16Z82-0011-R2b-SM-79OK9 60-69 years, male 236.5
GTEX-14JG1-0011-R2a-SM-5ZZVE 40-49 years, male 235.8
GTEX-1IKJJ-0011-R2b-SM-ARZLJ 60-69 years, male 235.2
GTEX-1445S-0011-R2b-SM-5PNUH 60-69 years, male 234.3
GTEX-X585-0011-R2B-SM-46MVF 50-59 years, male 233.1
GTEX-17EVP-0011-R2a-SM-7LG4W 40-49 years, male 231.9
GTEX-1HFI6-0011-R2a-SM-CMKH5 40-49 years, male 231.9
GTEX-1F6I4-0011-R2a-SM-CL536 60-69 years, male 230.9
GTEX-T6MN-0011-R2A-SM-32QOW 50-59 years, male 226.6
GTEX-13G51-0011-R2b-SM-5LZXS 60-69 years, male 226.3
GTEX-13SLX-0011-R2b-SM-5S2VP 50-59 years, female 225.6
GTEX-14BIN-0011-R2a-SM-5S2RJ 50-59 years, female 224.4
GTEX-12ZZX-0011-R2a-SM-5EGLG 40-49 years, female 224.1
GTEX-1LH75-0011-R2b-SM-EYYWQ 50-59 years, female 220.2
GTEX-13N2G-0011-R2a-SM-5MR4Q 60-69 years, male 219.0
GTEX-15DCD-0011-R2b-SM-6LPIE 70-79 years, female 216.9
GTEX-RU72-0011-R2A-SM-2TF6O 50-59 years, female 214.4
GTEX-1GN73-0011-R2a-SM-CJI2V 60-69 years, male 211.2
GTEX-145LS-0011-R2a-SM-5PNZI 60-69 years, female 208.9
GTEX-1HB9E-0011-R2b-SM-A96RW 50-59 years, male 207.7
GTEX-13FXS-0011-R2b-SM-5K7XX 50-59 years, male 207.3
GTEX-QDT8-0011-R2A-SM-32PKQ 30-39 years, female 206.5
GTEX-1B933-0011-R2b-SM-7IGNM 50-59 years, female 205.3
GTEX-13O3Q-0011-R2b-SM-5KM3K 50-59 years, male 204.0
GTEX-1B8L1-0011-R2a-SM-9OSVL 60-69 years, male 202.9
GTEX-13OW6-0011-R2a-SM-5L3HG 50-59 years, male 199.7
GTEX-15CHQ-0011-R2b-SM-6AJAD 60-69 years, male 199.5
GTEX-147GR-0011-R2b-SM-5S2RQ 60-69 years, male 197.9
GTEX-1HT8W-0011-R2a-SM-CMKH9 30-39 years, male 193.4
GTEX-1399T-0011-R2b-SM-5DUXM 60-69 years, male 192.0
GTEX-1313W-0011-R2a-SM-5EGLF 50-59 years, female 190.5
GTEX-15DYW-0011-R2b-SM-7KUKY 60-69 years, female 175.6
GTEX-11DZ1-0011-R2a-SM-DNZZM 50-59 years, male 172.9
GTEX-15ER7-0011-R2a-SM-6M46O 20-29 years, female 167.9
GTEX-Z93S-0011-R2a-SM-4RGNG 50-59 years, male 141.0
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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 510.0
FANTOM5 sample id Sample description Scaled Tags Per Million
Substantia nigra
Scaled Tags Per Million: 510.0
FF:10158-103A5 76 years, female 510.0

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 90.4
Pig sample Sample description nTPM
Substantia nigra
nTPM: 90.4
Samples: 4

Max nTPM: 101.5
Min nTPM: 79.5
Sample A Female 101.5
Sample B Female 79.5
Sample C Male 82.5
Sample D Male 98.0

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