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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:15.7RPKM
FANTOM5:58.6Tags 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:Low
Neuronal cells:Medium
 

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 CAB016680

 

Glial cells

Low  

Neuronal cells

Medium  
 
 
 

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

15.7

GTEx sample id

RPKM

 

Brain - Caudate (basal ganglia)

Brain - Caudate (basal ganglia)
RPKM: 15.7
Samples: 117

Max RPKM: 32
Min RPKM: 7.4
Std RPKM: 3.5
Median RPKM: 15.5
GTEX-WHSE-0011-R5A-SM-3P5ZO 32.0
GTEX-WWYW-0011-R5A-SM-3NB3E 25.6
GTEX-T2IS-0011-R5A-SM-32QP4 24.4
GTEX-13OVJ-0011-R5a-SM-5P9H7 23.4
GTEX-PVOW-0011-R5A-SM-32PL7 22.9
GTEX-QMR6-0011-R5A-SM-32PKT 21.7
GTEX-XMD1-0011-R5A-SM-4AT47 21.7
GTEX-P44H-0011-R5A-SM-2XCEX 21.5
GTEX-13X6I-0011-R5a-SM-5PNWW 20.7
GTEX-NPJ8-0011-R5a-SM-2HMJY 20.1
GTEX-12WSB-0011-R5b-SM-5GU67 19.8
GTEX-QVJO-0011-R5A-SM-2S1QM 19.8
GTEX-N7MT-0011-R5a-SM-2I3G6 19.7
GTEX-NL4W-0011-R5a-SM-2I3GD 19.5
GTEX-X585-0011-R5A-SM-46MVI 19.3
GTEX-13N1W-0011-R5b-SM-5MR5Q 19.0
GTEX-WVLH-0011-R5A-SM-3MJFW 18.8
GTEX-X4XX-0011-R5A-SM-46MWN 18.8
GTEX-13NYS-0011-R5a-SM-5MR4D 18.5
GTEX-132Q8-0011-R5a-SM-5IJDM 18.3
GTEX-ZAB4-0011-R5a-SM-4SOKC 18.3
GTEX-13SLW-0011-R5b-SM-5SI6Z 18.2
GTEX-11H98-0011-R5b-SM-57WCF 18.0
GTEX-13OW6-0011-R5a-SM-5O9BK 18.0
GTEX-13FHO-0011-R5b-SM-5LZZ3 17.9
GTEX-12WSM-0011-R5a-SM-5EQ4Y 17.7
GTEX-PWO3-0011-R5A-SM-2I5EZ 17.7
GTEX-12WSA-0011-R5b-SM-5GU5I 17.3
GTEX-13JUV-0011-R5a-SM-5LZY5 17.2
GTEX-13JVG-0011-R5a-SM-5MR4O 17.1
GTEX-145LS-0011-R5a-SM-5SI65 17.0
GTEX-NPJ7-0011-R5a-SM-33HBK 17.0
GTEX-11GSP-0011-R5a-SM-57WBE 16.9
GTEX-WZTO-0011-R5B-SM-3NMC5 16.9
GTEX-144GO-0011-R5a-SM-5PNUR 16.7
GTEX-14BIM-0011-R5b-SM-5S2RM 16.7
GTEX-N7MS-0011-R5a-SM-2HMK8 16.7
GTEX-T6MN-0011-R5A-SM-32QPD 16.7
GTEX-13O3O-0011-R5b-SM-5KM44 16.6
GTEX-OHPN-0011-R5A-SM-2I5FF 16.5
GTEX-TSE9-0011-R5A-SM-3DB7J 16.5
GTEX-131YS-0011-R5b-SM-5K7YB 16.4
GTEX-13X6K-0011-R5b-SM-5PNUE 16.4
GTEX-RVPU-0011-R5A-SM-2XCAD 16.3
GTEX-1399T-0011-R5b-SM-5IJDK 16.1
GTEX-13FXS-0011-R5b-SM-5LZYE 16.1
GTEX-ZE9C-0011-R5a-SM-5EGLO 16.1
GTEX-13CIG-0011-R5b-SM-5L3F2 16.0
GTEX-139TT-0011-R5b-SM-5K7W8 15.9
GTEX-13FLV-0011-R5a-SM-5LZWT 15.9
GTEX-13PVQ-0011-R5b-SM-5O9DI 15.9
GTEX-13OW8-0011-R5b-SM-5L3FQ 15.8
GTEX-ZF28-0011-R5a-SM-4WWCZ 15.8
GTEX-12WSF-0011-R5a-SM-5HL8K 15.7
GTEX-13RTJ-0011-R5a-SM-5P9HR 15.6
GTEX-X261-0011-R5A-SM-3NMB4 15.6
GTEX-Y8DK-0011-R5B-SM-4RTW6 15.6
GTEX-NL3H-0011-R5a-SM-2I3GB 15.5
GTEX-RVPV-0011-R5A-SM-2TF69 15.5
GTEX-11WQC-0011-R5a-SM-5BC74 15.4
GTEX-13CZV-0011-R5a-SM-5K7XA 15.3
GTEX-13OW5-0011-R5b-SM-5L3FR 15.3
GTEX-12ZZZ-0011-R5a-SM-5EQ4M 15.2
GTEX-139TS-0011-R5b-SM-5J2MZ 15.2
GTEX-13G51-0011-R5a-SM-5L3EB 15.2
GTEX-RU72-0011-R5A-SM-2TF6U 15.0
GTEX-S7SE-0011-R5A-SM-2XCDA 15.0
GTEX-YFC4-0011-R5a-SM-4RGLR 14.9
GTEX-ZUA1-0011-R5b-SM-51MTG 14.9
GTEX-R55E-0011-R5A-SM-2TC5N 14.8
GTEX-13OVL-0011-R5b-SM-5L3FU 14.7
GTEX-13O3Q-0011-R5b-SM-5P9H4 14.5
GTEX-1445S-0011-R5a-SM-5PNUS 14.5
GTEX-Q2AG-0011-R5A-SM-2HMJH 14.4
GTEX-UTHO-0011-R5A-SM-3GIJD 14.4
GTEX-13OVH-0011-R5b-SM-5KM4L 14.3
GTEX-ZE7O-0011-R5a-SM-57WBO 14.3
GTEX-12WSC-0011-R5b-SM-5CVNS 14.2
GTEX-12ZZY-0011-R5a-SM-5EGL9 14.1
GTEX-13S7M-0011-R5b-SM-5P9HS 14.1
GTEX-12WSD-0011-R5b-SM-5CVNG 13.8
GTEX-13SLX-0011-R5a-SM-5O9BV 13.8
GTEX-OXRN-0011-R5A-SM-2I5EF 13.7
GTEX-T5JC-0011-R5A-SM-32PLK 13.7
GTEX-ZXG5-0011-R5b-SM-57WBN 13.7
GTEX-11NV4-0011-R5a-SM-5NQ88 13.6
GTEX-139T8-0011-R5b-SM-5J1MO 13.6
GTEX-12ZZW-0011-R5a-SM-5DUVN 13.5
GTEX-13NYB-0011-R5a-SM-5MR45 13.5
GTEX-13OW7-0011-R5b-SM-5O9DM 13.5
GTEX-145MH-0011-R5a-SM-5P9JT 13.5
GTEX-14ABY-0011-R5b-SM-5SI7B 13.5
GTEX-WL46-0011-R5A-SM-3LK6V 13.4
GTEX-14BIN-0011-R5b-SM-5SI78 13.3
GTEX-13VXU-0011-R5a-SM-5O9D7 13.2
GTEX-13X6J-0011-R5b-SM-5PNWT 13.2
GTEX-13FLW-0011-R5a-SM-5LZX6 13.1
GTEX-ZV68-0011-R5a-SM-4YCDW 12.9
GTEX-ZVZQ-0011-R5b-SM-57WDC 12.8
GTEX-13PLJ-0011-R5a-SM-5O9BG 12.7
GTEX-Z93S-0011-R5b-SM-4RGNI 12.7
GTEX-1313W-0011-R5b-SM-5L3EP 12.6
GTEX-12ZZX-0011-R5a-SM-5HL89 12.4
GTEX-11OF3-0011-R5a-SM-57WB4 12.1
GTEX-XOTO-0011-R5A-SM-4B657 12.1
GTEX-12WSH-0011-R5b-SM-5P9F3 12.0
GTEX-S7PM-0011-R5A-SM-3NM8G 11.9
GTEX-ZVT3-0011-R5a-SM-51MSI 11.8
GTEX-144GL-0011-R5b-SM-5PNUJ 11.2
GTEX-13112-0011-R5b-SM-5DUV8 10.6
GTEX-13FHP-0011-R5b-SM-5LZY2 10.1
GTEX-11UD1-0011-R5b-SM-5P9FP 10.0
GTEX-YJ89-0011-R5a-SM-4V6GM 9.9
GTEX-1477Z-0011-R5b-SM-5PNUO 9.3
GTEX-13CF2-0011-R5a-SM-5LZWS 9.2
GTEX-13NZA-0011-R5b-SM-5KM4K 7.4
GTEX-145MG-0011-R5b-SM-5S2VU 7.4
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

58.6

FANTOM5 sample id

Sample description

Tags Per Million

Caudate nucleus
Tags Per Million: 58.6
FF:10164-103B2 76 years, female 69.1
FF:10379-105H1 89 years, female 48.1

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