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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:7.5RPKM
FANTOM5:43.1Tags 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 HPA039371

 

Antibody HPA040174

 

Glial cells

Low   Not detected  

Neuronal cells

Medium   High  
   
   
   

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

7.5

GTEx sample id

RPKM

 

Brain - Caudate (basal ganglia)

Brain - Caudate (basal ganglia)
RPKM: 7.5
Samples: 117

Max RPKM: 15.7
Min RPKM: 2.3
Std RPKM: 2.3
Median RPKM: 7.6
GTEX-P44H-0011-R5A-SM-2XCEX 15.7
GTEX-T2IS-0011-R5A-SM-32QP4 13.6
GTEX-QVJO-0011-R5A-SM-2S1QM 12.2
GTEX-11H98-0011-R5b-SM-57WCF 11.5
GTEX-ZAB4-0011-R5a-SM-4SOKC 11.1
GTEX-13G51-0011-R5a-SM-5L3EB 11.0
GTEX-13X6K-0011-R5b-SM-5PNUE 10.8
GTEX-131YS-0011-R5b-SM-5K7YB 10.7
GTEX-132Q8-0011-R5a-SM-5IJDM 10.5
GTEX-T5JC-0011-R5A-SM-32PLK 10.5
GTEX-T6MN-0011-R5A-SM-32QPD 10.5
GTEX-UTHO-0011-R5A-SM-3GIJD 10.1
GTEX-WHSE-0011-R5A-SM-3P5ZO 10.1
GTEX-13JUV-0011-R5a-SM-5LZY5 10.0
GTEX-PVOW-0011-R5A-SM-32PL7 10.0
GTEX-S7SE-0011-R5A-SM-2XCDA 10.0
GTEX-11OF3-0011-R5a-SM-57WB4 9.9
GTEX-13RTJ-0011-R5a-SM-5P9HR 9.9
GTEX-N7MT-0011-R5a-SM-2I3G6 9.9
GTEX-13FHO-0011-R5b-SM-5LZZ3 9.6
GTEX-13NYS-0011-R5a-SM-5MR4D 9.6
GTEX-139TT-0011-R5b-SM-5K7W8 9.5
GTEX-12WSC-0011-R5b-SM-5CVNS 9.4
GTEX-1313W-0011-R5b-SM-5L3EP 9.3
GTEX-1399T-0011-R5b-SM-5IJDK 9.3
GTEX-14BIM-0011-R5b-SM-5S2RM 9.3
GTEX-X585-0011-R5A-SM-46MVI 9.3
GTEX-13O3Q-0011-R5b-SM-5P9H4 9.2
GTEX-ZUA1-0011-R5b-SM-51MTG 9.2
GTEX-Q2AG-0011-R5A-SM-2HMJH 9.1
GTEX-145MH-0011-R5a-SM-5P9JT 9.0
GTEX-WVLH-0011-R5A-SM-3MJFW 9.0
GTEX-13N1W-0011-R5b-SM-5MR5Q 8.9
GTEX-N7MS-0011-R5a-SM-2HMK8 8.9
GTEX-12WSF-0011-R5a-SM-5HL8K 8.7
GTEX-13X6J-0011-R5b-SM-5PNWT 8.7
GTEX-RU72-0011-R5A-SM-2TF6U 8.7
GTEX-WZTO-0011-R5B-SM-3NMC5 8.7
GTEX-12ZZY-0011-R5a-SM-5EGL9 8.6
GTEX-OHPN-0011-R5A-SM-2I5FF 8.6
GTEX-14ABY-0011-R5b-SM-5SI7B 8.5
GTEX-12WSA-0011-R5b-SM-5GU5I 8.3
GTEX-13OVJ-0011-R5a-SM-5P9H7 8.3
GTEX-13CZV-0011-R5a-SM-5K7XA 8.1
GTEX-13VXU-0011-R5a-SM-5O9D7 8.0
GTEX-145LS-0011-R5a-SM-5SI65 8.0
GTEX-QMR6-0011-R5A-SM-32PKT 8.0
GTEX-13OW8-0011-R5b-SM-5L3FQ 7.9
GTEX-NL4W-0011-R5a-SM-2I3GD 7.9
GTEX-NPJ8-0011-R5a-SM-2HMJY 7.9
GTEX-PWO3-0011-R5A-SM-2I5EZ 7.9
GTEX-TSE9-0011-R5A-SM-3DB7J 7.9
GTEX-11NV4-0011-R5a-SM-5NQ88 7.8
GTEX-12WSB-0011-R5b-SM-5GU67 7.8
GTEX-R55E-0011-R5A-SM-2TC5N 7.8
GTEX-WWYW-0011-R5A-SM-3NB3E 7.8
GTEX-11GSP-0011-R5a-SM-57WBE 7.7
GTEX-13SLW-0011-R5b-SM-5SI6Z 7.7
GTEX-13X6I-0011-R5a-SM-5PNWW 7.6
GTEX-13SLX-0011-R5a-SM-5O9BV 7.5
GTEX-12ZZZ-0011-R5a-SM-5EQ4M 7.3
GTEX-13O3O-0011-R5b-SM-5KM44 7.3
GTEX-13OW6-0011-R5a-SM-5O9BK 7.3
GTEX-13OVL-0011-R5b-SM-5L3FU 7.2
GTEX-WL46-0011-R5A-SM-3LK6V 7.2
GTEX-Y8DK-0011-R5B-SM-4RTW6 7.2
GTEX-13FXS-0011-R5b-SM-5LZYE 7.1
GTEX-13NYB-0011-R5a-SM-5MR45 7.0
GTEX-13OW5-0011-R5b-SM-5L3FR 7.0
GTEX-NPJ7-0011-R5a-SM-33HBK 7.0
GTEX-ZE9C-0011-R5a-SM-5EGLO 7.0
GTEX-12WSM-0011-R5a-SM-5EQ4Y 6.9
GTEX-13S7M-0011-R5b-SM-5P9HS 6.9
GTEX-13FLV-0011-R5a-SM-5LZWT 6.8
GTEX-13JVG-0011-R5a-SM-5MR4O 6.8
GTEX-13OW7-0011-R5b-SM-5O9DM 6.7
GTEX-RVPU-0011-R5A-SM-2XCAD 6.6
GTEX-XMD1-0011-R5A-SM-4AT47 6.3
GTEX-13OVH-0011-R5b-SM-5KM4L 6.2
GTEX-X261-0011-R5A-SM-3NMB4 6.2
GTEX-YFC4-0011-R5a-SM-4RGLR 6.2
GTEX-12WSD-0011-R5b-SM-5CVNG 6.1
GTEX-13FLW-0011-R5a-SM-5LZX6 6.1
GTEX-RVPV-0011-R5A-SM-2TF69 6.1
GTEX-ZE7O-0011-R5a-SM-57WBO 6.1
GTEX-144GO-0011-R5a-SM-5PNUR 6.0
GTEX-ZVZQ-0011-R5b-SM-57WDC 6.0
GTEX-14BIN-0011-R5b-SM-5SI78 5.9
GTEX-12ZZX-0011-R5a-SM-5HL89 5.7
GTEX-12ZZW-0011-R5a-SM-5DUVN 5.6
GTEX-NL3H-0011-R5a-SM-2I3GB 5.6
GTEX-Z93S-0011-R5b-SM-4RGNI 5.5
GTEX-139T8-0011-R5b-SM-5J1MO 5.4
GTEX-1445S-0011-R5a-SM-5PNUS 5.4
GTEX-XOTO-0011-R5A-SM-4B657 5.2
GTEX-ZXG5-0011-R5b-SM-57WBN 5.2
GTEX-OXRN-0011-R5A-SM-2I5EF 5.0
GTEX-X4XX-0011-R5A-SM-46MWN 5.0
GTEX-139TS-0011-R5b-SM-5J2MZ 4.9
GTEX-11WQC-0011-R5a-SM-5BC74 4.8
GTEX-ZF28-0011-R5a-SM-4WWCZ 4.8
GTEX-ZVT3-0011-R5a-SM-51MSI 4.8
GTEX-13CIG-0011-R5b-SM-5L3F2 4.7
GTEX-13PLJ-0011-R5a-SM-5O9BG 4.7
GTEX-13PVQ-0011-R5b-SM-5O9DI 4.7
GTEX-144GL-0011-R5b-SM-5PNUJ 4.7
GTEX-13112-0011-R5b-SM-5DUV8 4.5
GTEX-ZV68-0011-R5a-SM-4YCDW 4.5
GTEX-11UD1-0011-R5b-SM-5P9FP 4.1
GTEX-YJ89-0011-R5a-SM-4V6GM 4.0
GTEX-1477Z-0011-R5b-SM-5PNUO 3.7
GTEX-12WSH-0011-R5b-SM-5P9F3 3.6
GTEX-S7PM-0011-R5A-SM-3NM8G 3.5
GTEX-13FHP-0011-R5b-SM-5LZY2 3.4
GTEX-13CF2-0011-R5a-SM-5LZWS 3.2
GTEX-13NZA-0011-R5b-SM-5KM4K 2.6
GTEX-145MG-0011-R5b-SM-5S2VU 2.3
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

43.1

FANTOM5 sample id

Sample description

Tags Per Million

Caudate nucleus
Tags Per Million: 43.1
FF:10379-105H1 89 years, female 46.6
FF:10164-103B2 76 years, female 39.6

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