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TISSUE ATLAS PRIMARY DATA CAUDATE

GENE/PROTEIN

Antibody validation


Dictionary

Caudate

CAUDATE - Expression summary

Protein expressioni

The protein expression bar, with the units not detected (n), low (l), medium (m) and high (h), is based on a best estimate of the true protein expression for proteins where the antibody staining pattern has been analyzed by knowledge-based annotation. For genes where more than one antibody has been used, a collective score is set. For details, see Assays & annotation.

h
m
l
n

RNA expressioni

RNA expression shows average values based on RNA-seq data generated by HPA, the Genotype-Tissue Expression (GTEx) consortium or the FANTOM5 consortium.

Read more

GTEx:28.1RPKM
FANTOM5:113.4Tags Per Million

CAUDATE - Annotated protein expressioni

The detailed normal tissue page shows images of the stained tissue, together with antibody staining and expression level of the cell types. A knowledge-based annotated protein expression is provided for each cell type at the top of the page and the staining level of the individual antibodies is given underneath each antibody ID.

Samples from up to three different individuals have been stained for each antibody. The gender, age and tissue characterization are reported for each individual (patient) and are viewable when clicking on the image for magnification.

The images can be clicked for an enlarged view that can be panned. From the enlarged view, all stained images for all antibodies can be browsed (represented by miniature images). The miniature image with an orange overlay is the currently displayed image.

For histological reference, view the histological dictionary.

Annotated protein
expression

Glial cells:Not detected
Neuronal cells:Not detected
 

Antibody stainingi

This score describes the level of antibody staining observed in the annotated cell types as not detected, low, medium, or high. It is based on the staining intensity and fraction of stained cells.

Read more

Antibody HPA026687

 

Glial cells

Not detected  

Neuronal cells

Not detected  
 
 
 

CAUDATE - HPA RNA-seqi

The RNA-seq details section shows detailed information about the individual samples used for the transcript profiling and results of the RNA-seq analysis.

Information about each individual sample is listed below, including gender, age, a tissue section image and estimated fractions of cell types. TPM (transcripts per million) values give a quantification of the gene abundance which is comparable between different genes and samples.

Read more

Pending HPA RNA-seq analysis


CAUDATE - GTEx RNA-seqi

RNA-Seq data is reported as average RPKM (reads per kilobase per million mapped reads), generated by the Genotype-Tissue Expression (GTEx) project. More information can be found on the GTEx portal.

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. RPKM values of the individual samples are presented next to the box plot.

Read more

Average RPKM

28.1

GTEx sample id

Sample description

RPKM

Brain - Caudate (basal ganglia)
RPKM: 28.1
Samples: 117

Max RPKM: 105.4
Min RPKM: 4.7
Std RPKM: 13.8
Median RPKM: 26.9
GTEX-T2IS-0011-R5A-SM-32QP4 20-29 years, female 105.4
GTEX-PVOW-0011-R5A-SM-32PL7 40-49 years, male 68.1
GTEX-P44H-0011-R5A-SM-2XCEX 40-49 years, male 51.3
GTEX-1399T-0011-R5b-SM-5IJDK 60-69 years, male 50.4
GTEX-QVJO-0011-R5A-SM-2S1QM 60-69 years, female 49.9
GTEX-WWYW-0011-R5A-SM-3NB3E 50-59 years, female 46.8
GTEX-131YS-0011-R5b-SM-5K7YB 60-69 years, female 46.0
GTEX-145MH-0011-R5a-SM-5P9JT 50-59 years, male 45.2
GTEX-Z93S-0011-R5b-SM-4RGNI 50-59 years, male 44.9
GTEX-145LS-0011-R5a-SM-5SI65 60-69 years, female 44.3
GTEX-X585-0011-R5A-SM-46MVI 50-59 years, male 44.2
GTEX-WVLH-0011-R5A-SM-3MJFW 50-59 years, male 43.5
GTEX-WL46-0011-R5A-SM-3LK6V 50-59 years, male 42.5
GTEX-139TT-0011-R5b-SM-5K7W8 60-69 years, male 42.4
GTEX-13X6J-0011-R5b-SM-5PNWT 50-59 years, male 42.1
GTEX-WZTO-0011-R5B-SM-3NMC5 40-49 years, male 41.7
GTEX-1313W-0011-R5b-SM-5L3EP 50-59 years, female 41.3
GTEX-12WSF-0011-R5a-SM-5HL8K 70-79 years, male 40.4
GTEX-13G51-0011-R5a-SM-5L3EB 60-69 years, male 40.4
GTEX-N7MS-0011-R5a-SM-2HMK8 60-69 years, male 39.9
GTEX-12WSC-0011-R5b-SM-5CVNS 50-59 years, male 39.8
GTEX-ZAB4-0011-R5a-SM-4SOKC 40-49 years, male 39.7
GTEX-13O3Q-0011-R5b-SM-5P9H4 50-59 years, male 38.9
GTEX-13SLX-0011-R5a-SM-5O9BV 50-59 years, female 38.0
GTEX-13FHO-0011-R5b-SM-5LZZ3 60-69 years, male 37.9
GTEX-14ABY-0011-R5b-SM-5SI7B 50-59 years, male 37.2
GTEX-13N1W-0011-R5b-SM-5MR5Q 70-79 years, male 37.1
GTEX-S7SE-0011-R5A-SM-2XCDA 50-59 years, male 37.0
GTEX-13VXU-0011-R5a-SM-5O9D7 50-59 years, male 36.9
GTEX-13O3O-0011-R5b-SM-5KM44 60-69 years, female 36.7
GTEX-WHSE-0011-R5A-SM-3P5ZO 20-29 years, male 35.3
GTEX-14BIM-0011-R5b-SM-5S2RM 60-69 years, female 35.2
GTEX-12ZZZ-0011-R5a-SM-5EQ4M 60-69 years, male 35.1
GTEX-UTHO-0011-R5A-SM-3GIJD 60-69 years, male 35.1
GTEX-13FLW-0011-R5a-SM-5LZX6 50-59 years, male 34.1
GTEX-12WSM-0011-R5a-SM-5EQ4Y 60-69 years, male 33.8
GTEX-T6MN-0011-R5A-SM-32QPD 50-59 years, male 33.7
GTEX-11GSP-0011-R5a-SM-57WBE 60-69 years, female 33.5
GTEX-R55E-0011-R5A-SM-2TC5N 20-29 years, male 33.3
GTEX-11OF3-0011-R5a-SM-57WB4 60-69 years, male 33.2
GTEX-11NV4-0011-R5a-SM-5NQ88 60-69 years, male 33.0
GTEX-Q2AG-0011-R5A-SM-2HMJH 40-49 years, female 32.4
GTEX-Y8DK-0011-R5B-SM-4RTW6 60-69 years, male 31.9
GTEX-ZUA1-0011-R5b-SM-51MTG 40-49 years, male 31.8
GTEX-12ZZY-0011-R5a-SM-5EGL9 60-69 years, male 31.7
GTEX-13OVL-0011-R5b-SM-5L3FU 50-59 years, male 31.7
GTEX-N7MT-0011-R5a-SM-2I3G6 60-69 years, female 31.4
GTEX-13FXS-0011-R5b-SM-5LZYE 50-59 years, male 31.3
GTEX-13OW6-0011-R5a-SM-5O9BK 50-59 years, male 31.2
GTEX-13X6I-0011-R5a-SM-5PNWW 60-69 years, male 31.1
GTEX-QMR6-0011-R5A-SM-32PKT 50-59 years, male 31.0
GTEX-11H98-0011-R5b-SM-57WCF 50-59 years, male 30.3
GTEX-RU72-0011-R5A-SM-2TF6U 50-59 years, female 30.2
GTEX-12WSB-0011-R5b-SM-5GU67 60-69 years, female 29.6
GTEX-RVPU-0011-R5A-SM-2XCAD 50-59 years, male 28.6
GTEX-T5JC-0011-R5A-SM-32PLK 20-29 years, male 28.2
GTEX-13OW7-0011-R5b-SM-5O9DM 50-59 years, male 27.9
GTEX-13S7M-0011-R5b-SM-5P9HS 60-69 years, female 27.6
GTEX-132Q8-0011-R5a-SM-5IJDM 60-69 years, male 26.9
GTEX-13X6K-0011-R5b-SM-5PNUE 60-69 years, female 26.7
GTEX-13RTJ-0011-R5a-SM-5P9HR 60-69 years, male 26.6
GTEX-RVPV-0011-R5A-SM-2TF69 60-69 years, male 25.2
GTEX-TSE9-0011-R5A-SM-3DB7J 60-69 years, female 24.9
GTEX-12WSD-0011-R5b-SM-5CVNG 60-69 years, female 24.8
GTEX-12WSA-0011-R5b-SM-5GU5I 60-69 years, male 24.7
GTEX-13OW8-0011-R5b-SM-5L3FQ 60-69 years, male 24.7
GTEX-13CZV-0011-R5a-SM-5K7XA 60-69 years, male 24.5
GTEX-13JUV-0011-R5a-SM-5LZY5 40-49 years, female 24.5
GTEX-13FLV-0011-R5a-SM-5LZWT 50-59 years, male 23.5
GTEX-14BIN-0011-R5b-SM-5SI78 50-59 years, female 23.2
GTEX-ZE7O-0011-R5a-SM-57WBO 50-59 years, female 22.8
GTEX-PWO3-0011-R5A-SM-2I5EZ 60-69 years, female 22.5
GTEX-13NYB-0011-R5a-SM-5MR45 40-49 years, male 22.0
GTEX-YFC4-0011-R5a-SM-4RGLR 40-49 years, female 22.0
GTEX-XMD1-0011-R5A-SM-4AT47 60-69 years, male 21.9
GTEX-13OW5-0011-R5b-SM-5L3FR 60-69 years, male 21.8
GTEX-13SLW-0011-R5b-SM-5SI6Z 70-79 years, male 21.6
GTEX-NL4W-0011-R5a-SM-2I3GD 50-59 years, male 21.5
GTEX-OHPN-0011-R5A-SM-2I5FF 60-69 years, female 21.4
GTEX-ZE9C-0011-R5a-SM-5EGLO 60-69 years, male 21.4
GTEX-X4XX-0011-R5A-SM-46MWN 60-69 years, male 20.5
GTEX-ZXG5-0011-R5b-SM-57WBN 60-69 years, male 20.5
GTEX-13OVH-0011-R5b-SM-5KM4L 70-79 years, male 20.3
GTEX-NL3H-0011-R5a-SM-2I3GB 60-69 years, male 20.3
GTEX-13NYS-0011-R5a-SM-5MR4D 60-69 years, male 20.2
GTEX-XOTO-0011-R5A-SM-4B657 50-59 years, male 19.8
GTEX-NPJ8-0011-R5a-SM-2HMJY 40-49 years, male 19.4
GTEX-12ZZX-0011-R5a-SM-5HL89 40-49 years, female 19.2
GTEX-12ZZW-0011-R5a-SM-5DUVN 50-59 years, male 17.3
GTEX-144GO-0011-R5a-SM-5PNUR 60-69 years, male 17.3
GTEX-ZF28-0011-R5a-SM-4WWCZ 60-69 years, male 17.3
GTEX-11WQC-0011-R5a-SM-5BC74 60-69 years, male 17.2
GTEX-13JVG-0011-R5a-SM-5MR4O 60-69 years, male 16.8
GTEX-ZVZQ-0011-R5b-SM-57WDC 60-69 years, female 16.5
GTEX-13OVJ-0011-R5a-SM-5P9H7 50-59 years, female 16.1
GTEX-139TS-0011-R5b-SM-5J2MZ 60-69 years, male 15.9
GTEX-OXRN-0011-R5A-SM-2I5EF 50-59 years, male 15.9
GTEX-YJ89-0011-R5a-SM-4V6GM 60-69 years, male 14.8
GTEX-13CIG-0011-R5b-SM-5L3F2 50-59 years, male 14.4
GTEX-ZVT3-0011-R5a-SM-51MSI 60-69 years, female 14.0
GTEX-NPJ7-0011-R5a-SM-33HBK 60-69 years, female 13.2
GTEX-X261-0011-R5A-SM-3NMB4 50-59 years, male 12.9
GTEX-13PLJ-0011-R5a-SM-5O9BG 60-69 years, female 12.7
GTEX-13PVQ-0011-R5b-SM-5O9DI 50-59 years, male 12.7
GTEX-ZV68-0011-R5a-SM-4YCDW 50-59 years, female 11.8
GTEX-12WSH-0011-R5b-SM-5P9F3 50-59 years, male 11.4
GTEX-13112-0011-R5b-SM-5DUV8 50-59 years, male 11.3
GTEX-1445S-0011-R5a-SM-5PNUS 60-69 years, male 10.9
GTEX-144GL-0011-R5b-SM-5PNUJ 50-59 years, male 10.2
GTEX-S7PM-0011-R5A-SM-3NM8G 60-69 years, male 9.7
GTEX-13FHP-0011-R5b-SM-5LZY2 50-59 years, male 8.8
GTEX-1477Z-0011-R5b-SM-5PNUO 60-69 years, male 8.5
GTEX-11UD1-0011-R5b-SM-5P9FP 40-49 years, female 7.8
GTEX-139T8-0011-R5b-SM-5J1MO 60-69 years, male 7.8
GTEX-13CF2-0011-R5a-SM-5LZWS 60-69 years, male 7.6
GTEX-145MG-0011-R5b-SM-5S2VU 50-59 years, male 5.0
GTEX-13NZA-0011-R5b-SM-5KM4K 60-69 years, male 4.7
Show all

CAUDATE - FANTOM5 CAGEi

Tissue data obtained through Cap Analysis of Gene Expression (CAGE) are reported as Tags Per Million, generated by the FANTOM5 project. More information can be found here.

Read more

Average Tags Per Million

113.4

FANTOM5 sample id

Sample description

Tags Per Million

Caudate nucleus
Tags Per Million: 79.4
FF:10164-103B2 76 years, female 79.4

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