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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:23.9RPKM
FANTOM5:66.2Tags 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:Low
 

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 HPA009073

 

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

23.9

GTEx sample id

RPKM

 

Brain - Caudate (basal ganglia)

Brain - Caudate (basal ganglia)
RPKM: 23.9
Samples: 117

Max RPKM: 77.9
Min RPKM: 4.5
Std RPKM: 12.8
Median RPKM: 21.8
GTEX-WL46-0011-R5A-SM-3LK6V 77.9
GTEX-X4XX-0011-R5A-SM-46MWN 75.9
GTEX-RVPV-0011-R5A-SM-2TF69 52.2
GTEX-X585-0011-R5A-SM-46MVI 50.3
GTEX-13NYB-0011-R5a-SM-5MR45 48.8
GTEX-11NV4-0011-R5a-SM-5NQ88 48.1
GTEX-13O3O-0011-R5b-SM-5KM44 47.5
GTEX-12ZZZ-0011-R5a-SM-5EQ4M 46.1
GTEX-13FXS-0011-R5b-SM-5LZYE 42.1
GTEX-N7MS-0011-R5a-SM-2HMK8 41.8
GTEX-Z93S-0011-R5b-SM-4RGNI 41.5
GTEX-13X6I-0011-R5a-SM-5PNWW 41.0
GTEX-WZTO-0011-R5B-SM-3NMC5 41.0
GTEX-13FLV-0011-R5a-SM-5LZWT 37.3
GTEX-QMR6-0011-R5A-SM-32PKT 37.1
GTEX-R55E-0011-R5A-SM-2TC5N 36.5
GTEX-12WSF-0011-R5a-SM-5HL8K 36.4
GTEX-13OW8-0011-R5b-SM-5L3FQ 36.2
GTEX-ZAB4-0011-R5a-SM-4SOKC 36.0
GTEX-WVLH-0011-R5A-SM-3MJFW 35.1
GTEX-13FHP-0011-R5b-SM-5LZY2 34.1
GTEX-XOTO-0011-R5A-SM-4B657 34.0
GTEX-13FLW-0011-R5a-SM-5LZX6 33.9
GTEX-PVOW-0011-R5A-SM-32PL7 33.4
GTEX-13OVH-0011-R5b-SM-5KM4L 32.9
GTEX-13FHO-0011-R5b-SM-5LZZ3 30.6
GTEX-14BIN-0011-R5b-SM-5SI78 30.4
GTEX-13OW7-0011-R5b-SM-5O9DM 30.3
GTEX-13PVQ-0011-R5b-SM-5O9DI 30.1
GTEX-13X6K-0011-R5b-SM-5PNUE 29.9
GTEX-13N1W-0011-R5b-SM-5MR5Q 29.5
GTEX-12WSA-0011-R5b-SM-5GU5I 29.4
GTEX-WWYW-0011-R5A-SM-3NB3E 28.9
GTEX-12ZZY-0011-R5a-SM-5EGL9 28.8
GTEX-145MH-0011-R5a-SM-5P9JT 28.2
GTEX-Y8DK-0011-R5B-SM-4RTW6 27.5
GTEX-13RTJ-0011-R5a-SM-5P9HR 27.4
GTEX-12WSB-0011-R5b-SM-5GU67 27.1
GTEX-13SLX-0011-R5a-SM-5O9BV 27.0
GTEX-ZXG5-0011-R5b-SM-57WBN 27.0
GTEX-131YS-0011-R5b-SM-5K7YB 26.9
GTEX-13JVG-0011-R5a-SM-5MR4O 26.8
GTEX-13SLW-0011-R5b-SM-5SI6Z 26.3
GTEX-145LS-0011-R5a-SM-5SI65 26.2
GTEX-13OVL-0011-R5b-SM-5L3FU 25.0
GTEX-XMD1-0011-R5A-SM-4AT47 24.6
GTEX-13OVJ-0011-R5a-SM-5P9H7 24.5
GTEX-14ABY-0011-R5b-SM-5SI7B 24.4
GTEX-11GSP-0011-R5a-SM-57WBE 24.3
GTEX-13S7M-0011-R5b-SM-5P9HS 24.2
GTEX-13O3Q-0011-R5b-SM-5P9H4 24.1
GTEX-ZUA1-0011-R5b-SM-51MTG 23.9
GTEX-144GL-0011-R5b-SM-5PNUJ 23.7
GTEX-YFC4-0011-R5a-SM-4RGLR 23.0
GTEX-132Q8-0011-R5a-SM-5IJDM 22.9
GTEX-13OW6-0011-R5a-SM-5O9BK 22.7
GTEX-ZF28-0011-R5a-SM-4WWCZ 22.7
GTEX-1399T-0011-R5b-SM-5IJDK 21.8
GTEX-S7SE-0011-R5A-SM-2XCDA 21.8
GTEX-14BIM-0011-R5b-SM-5S2RM 20.6
GTEX-ZE7O-0011-R5a-SM-57WBO 20.4
GTEX-13VXU-0011-R5a-SM-5O9D7 20.2
GTEX-QVJO-0011-R5A-SM-2S1QM 20.2
GTEX-13OW5-0011-R5b-SM-5L3FR 19.4
GTEX-WHSE-0011-R5A-SM-3P5ZO 19.3
GTEX-13112-0011-R5b-SM-5DUV8 19.0
GTEX-RVPU-0011-R5A-SM-2XCAD 18.9
GTEX-11H98-0011-R5b-SM-57WCF 18.8
GTEX-11WQC-0011-R5a-SM-5BC74 18.7
GTEX-ZVT3-0011-R5a-SM-51MSI 18.7
GTEX-OHPN-0011-R5A-SM-2I5FF 18.6
GTEX-NL4W-0011-R5a-SM-2I3GD 18.5
GTEX-12WSD-0011-R5b-SM-5CVNG 18.4
GTEX-13G51-0011-R5a-SM-5L3EB 18.4
GTEX-Q2AG-0011-R5A-SM-2HMJH 17.9
GTEX-12WSC-0011-R5b-SM-5CVNS 17.6
GTEX-1313W-0011-R5b-SM-5L3EP 17.6
GTEX-UTHO-0011-R5A-SM-3GIJD 17.4
GTEX-12ZZW-0011-R5a-SM-5DUVN 17.3
GTEX-13X6J-0011-R5b-SM-5PNWT 17.1
GTEX-ZVZQ-0011-R5b-SM-57WDC 17.0
GTEX-T5JC-0011-R5A-SM-32PLK 16.9
GTEX-T6MN-0011-R5A-SM-32QPD 16.8
GTEX-139TS-0011-R5b-SM-5J2MZ 16.3
GTEX-N7MT-0011-R5a-SM-2I3G6 16.1
GTEX-13CF2-0011-R5a-SM-5LZWS 15.8
GTEX-11OF3-0011-R5a-SM-57WB4 15.5
GTEX-RU72-0011-R5A-SM-2TF6U 15.2
GTEX-1445S-0011-R5a-SM-5PNUS 14.3
GTEX-144GO-0011-R5a-SM-5PNUR 14.3
GTEX-13JUV-0011-R5a-SM-5LZY5 13.9
GTEX-12WSH-0011-R5b-SM-5P9F3 13.7
GTEX-13NYS-0011-R5a-SM-5MR4D 13.7
GTEX-X261-0011-R5A-SM-3NMB4 13.4
GTEX-NL3H-0011-R5a-SM-2I3GB 13.3
GTEX-TSE9-0011-R5A-SM-3DB7J 13.3
GTEX-13CZV-0011-R5a-SM-5K7XA 12.5
GTEX-12ZZX-0011-R5a-SM-5HL89 12.3
GTEX-13PLJ-0011-R5a-SM-5O9BG 12.2
GTEX-ZE9C-0011-R5a-SM-5EGLO 12.1
GTEX-139TT-0011-R5b-SM-5K7W8 11.5
GTEX-NPJ7-0011-R5a-SM-33HBK 11.1
GTEX-ZV68-0011-R5a-SM-4YCDW 10.5
GTEX-139T8-0011-R5b-SM-5J1MO 10.1
GTEX-P44H-0011-R5A-SM-2XCEX 10.1
GTEX-YJ89-0011-R5a-SM-4V6GM 10.0
GTEX-12WSM-0011-R5a-SM-5EQ4Y 9.9
GTEX-1477Z-0011-R5b-SM-5PNUO 9.9
GTEX-NPJ8-0011-R5a-SM-2HMJY 9.8
GTEX-11UD1-0011-R5b-SM-5P9FP 8.9
GTEX-PWO3-0011-R5A-SM-2I5EZ 8.6
GTEX-OXRN-0011-R5A-SM-2I5EF 8.5
GTEX-S7PM-0011-R5A-SM-3NM8G 7.6
GTEX-13CIG-0011-R5b-SM-5L3F2 6.1
GTEX-13NZA-0011-R5b-SM-5KM4K 5.1
GTEX-145MG-0011-R5b-SM-5S2VU 5.0
GTEX-T2IS-0011-R5A-SM-32QP4 4.5
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

66.2

FANTOM5 sample id

Sample description

Tags Per Million

Caudate nucleus
Tags Per Million: 66.2
FF:10164-103B2 76 years, female 68.2
FF:10379-105H1 89 years, female 64.1

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