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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:1.1RPKM
FANTOM5:13.6Tags 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:Not detected
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 HPA058815

 

Glial cells

Not detected  

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

1.1

GTEx sample id

Sample description

RPKM

Brain - Caudate (basal ganglia)
RPKM: 1.1
Samples: 117

Max RPKM: 1.9
Min RPKM: 0.4
Std RPKM: 0.3
Median RPKM: 1.1
GTEX-T6MN-0011-R5A-SM-32QPD 50-59 years, male 1.9
GTEX-131YS-0011-R5b-SM-5K7YB 60-69 years, female 1.8
GTEX-139TT-0011-R5b-SM-5K7W8 60-69 years, male 1.8
GTEX-13G51-0011-R5a-SM-5L3EB 60-69 years, male 1.8
GTEX-13O3Q-0011-R5b-SM-5P9H4 50-59 years, male 1.8
GTEX-13RTJ-0011-R5a-SM-5P9HR 60-69 years, male 1.8
GTEX-12WSC-0011-R5b-SM-5CVNS 50-59 years, male 1.7
GTEX-1399T-0011-R5b-SM-5IJDK 60-69 years, male 1.7
GTEX-14BIM-0011-R5b-SM-5S2RM 60-69 years, female 1.7
GTEX-Q2AG-0011-R5A-SM-2HMJH 40-49 years, female 1.7
GTEX-1313W-0011-R5b-SM-5L3EP 50-59 years, female 1.6
GTEX-13N1W-0011-R5b-SM-5MR5Q 70-79 years, male 1.6
GTEX-WHSE-0011-R5A-SM-3P5ZO 20-29 years, male 1.6
GTEX-WL46-0011-R5A-SM-3LK6V 50-59 years, male 1.6
GTEX-WVLH-0011-R5A-SM-3MJFW 50-59 years, male 1.6
GTEX-13FXS-0011-R5b-SM-5LZYE 50-59 years, male 1.5
GTEX-13JUV-0011-R5a-SM-5LZY5 40-49 years, female 1.5
GTEX-145MH-0011-R5a-SM-5P9JT 50-59 years, male 1.5
GTEX-N7MT-0011-R5a-SM-2I3G6 60-69 years, female 1.5
GTEX-RU72-0011-R5A-SM-2TF6U 50-59 years, female 1.5
GTEX-T5JC-0011-R5A-SM-32PLK 20-29 years, male 1.5
GTEX-WZTO-0011-R5B-SM-3NMC5 40-49 years, male 1.5
GTEX-ZAB4-0011-R5a-SM-4SOKC 40-49 years, male 1.5
GTEX-11GSP-0011-R5a-SM-57WBE 60-69 years, female 1.4
GTEX-11OF3-0011-R5a-SM-57WB4 60-69 years, male 1.4
GTEX-12ZZY-0011-R5a-SM-5EGL9 60-69 years, male 1.4
GTEX-132Q8-0011-R5a-SM-5IJDM 60-69 years, male 1.4
GTEX-13FHO-0011-R5b-SM-5LZZ3 60-69 years, male 1.4
GTEX-13S7M-0011-R5b-SM-5P9HS 60-69 years, female 1.4
GTEX-13X6K-0011-R5b-SM-5PNUE 60-69 years, female 1.4
GTEX-145LS-0011-R5a-SM-5SI65 60-69 years, female 1.4
GTEX-14ABY-0011-R5b-SM-5SI7B 50-59 years, male 1.4
GTEX-ZUA1-0011-R5b-SM-51MTG 40-49 years, male 1.4
GTEX-12ZZZ-0011-R5a-SM-5EQ4M 60-69 years, male 1.3
GTEX-13OW6-0011-R5a-SM-5O9BK 50-59 years, male 1.3
GTEX-13X6I-0011-R5a-SM-5PNWW 60-69 years, male 1.3
GTEX-13X6J-0011-R5b-SM-5PNWT 50-59 years, male 1.3
GTEX-P44H-0011-R5A-SM-2XCEX 40-49 years, male 1.3
GTEX-QVJO-0011-R5A-SM-2S1QM 60-69 years, female 1.3
GTEX-S7SE-0011-R5A-SM-2XCDA 50-59 years, male 1.3
GTEX-WWYW-0011-R5A-SM-3NB3E 50-59 years, female 1.3
GTEX-X585-0011-R5A-SM-46MVI 50-59 years, male 1.3
GTEX-ZE7O-0011-R5a-SM-57WBO 50-59 years, female 1.3
GTEX-13O3O-0011-R5b-SM-5KM44 60-69 years, female 1.2
GTEX-13OVL-0011-R5b-SM-5L3FU 50-59 years, male 1.2
GTEX-13OW7-0011-R5b-SM-5O9DM 50-59 years, male 1.2
GTEX-13OW8-0011-R5b-SM-5L3FQ 60-69 years, male 1.2
GTEX-13SLX-0011-R5a-SM-5O9BV 50-59 years, female 1.2
GTEX-13VXU-0011-R5a-SM-5O9D7 50-59 years, male 1.2
GTEX-N7MS-0011-R5a-SM-2HMK8 60-69 years, male 1.2
GTEX-Y8DK-0011-R5B-SM-4RTW6 60-69 years, male 1.2
GTEX-Z93S-0011-R5b-SM-4RGNI 50-59 years, male 1.2
GTEX-11H98-0011-R5b-SM-57WCF 50-59 years, male 1.1
GTEX-13FLV-0011-R5a-SM-5LZWT 50-59 years, male 1.1
GTEX-13FLW-0011-R5a-SM-5LZX6 50-59 years, male 1.1
GTEX-13NYS-0011-R5a-SM-5MR4D 60-69 years, male 1.1
GTEX-13OW5-0011-R5b-SM-5L3FR 60-69 years, male 1.1
GTEX-OHPN-0011-R5A-SM-2I5FF 60-69 years, female 1.1
GTEX-PVOW-0011-R5A-SM-32PL7 40-49 years, male 1.1
GTEX-RVPV-0011-R5A-SM-2TF69 60-69 years, male 1.1
GTEX-T2IS-0011-R5A-SM-32QP4 20-29 years, female 1.1
GTEX-TSE9-0011-R5A-SM-3DB7J 60-69 years, female 1.1
GTEX-UTHO-0011-R5A-SM-3GIJD 60-69 years, male 1.1
GTEX-YFC4-0011-R5a-SM-4RGLR 40-49 years, female 1.1
GTEX-11NV4-0011-R5a-SM-5NQ88 60-69 years, male 1.0
GTEX-12WSD-0011-R5b-SM-5CVNG 60-69 years, female 1.0
GTEX-12WSM-0011-R5a-SM-5EQ4Y 60-69 years, male 1.0
GTEX-13CZV-0011-R5a-SM-5K7XA 60-69 years, male 1.0
GTEX-13NYB-0011-R5a-SM-5MR45 40-49 years, male 1.0
GTEX-13OVH-0011-R5b-SM-5KM4L 70-79 years, male 1.0
GTEX-NL4W-0011-R5a-SM-2I3GD 50-59 years, male 1.0
GTEX-NPJ8-0011-R5a-SM-2HMJY 40-49 years, male 1.0
GTEX-RVPU-0011-R5A-SM-2XCAD 50-59 years, male 1.0
GTEX-ZE9C-0011-R5a-SM-5EGLO 60-69 years, male 1.0
GTEX-12WSF-0011-R5a-SM-5HL8K 70-79 years, male 0.9
GTEX-12ZZX-0011-R5a-SM-5HL89 40-49 years, female 0.9
GTEX-13OVJ-0011-R5a-SM-5P9H7 50-59 years, female 0.9
GTEX-13SLW-0011-R5b-SM-5SI6Z 70-79 years, male 0.9
GTEX-R55E-0011-R5A-SM-2TC5N 20-29 years, male 0.9
GTEX-X4XX-0011-R5A-SM-46MWN 60-69 years, male 0.9
GTEX-XMD1-0011-R5A-SM-4AT47 60-69 years, male 0.9
GTEX-XOTO-0011-R5A-SM-4B657 50-59 years, male 0.9
GTEX-ZVZQ-0011-R5b-SM-57WDC 60-69 years, female 0.9
GTEX-ZXG5-0011-R5b-SM-57WBN 60-69 years, male 0.9
GTEX-12WSB-0011-R5b-SM-5GU67 60-69 years, female 0.8
GTEX-12ZZW-0011-R5a-SM-5DUVN 50-59 years, male 0.8
GTEX-13JVG-0011-R5a-SM-5MR4O 60-69 years, male 0.8
GTEX-13PVQ-0011-R5b-SM-5O9DI 50-59 years, male 0.8
GTEX-144GO-0011-R5a-SM-5PNUR 60-69 years, male 0.8
GTEX-14BIN-0011-R5b-SM-5SI78 50-59 years, female 0.8
GTEX-OXRN-0011-R5A-SM-2I5EF 50-59 years, male 0.8
GTEX-PWO3-0011-R5A-SM-2I5EZ 60-69 years, female 0.8
GTEX-X261-0011-R5A-SM-3NMB4 50-59 years, male 0.8
GTEX-ZF28-0011-R5a-SM-4WWCZ 60-69 years, male 0.8
GTEX-12WSA-0011-R5b-SM-5GU5I 60-69 years, male 0.7
GTEX-139TS-0011-R5b-SM-5J2MZ 60-69 years, male 0.7
GTEX-13CIG-0011-R5b-SM-5L3F2 50-59 years, male 0.7
GTEX-1445S-0011-R5a-SM-5PNUS 60-69 years, male 0.7
GTEX-NL3H-0011-R5a-SM-2I3GB 60-69 years, male 0.7
GTEX-QMR6-0011-R5A-SM-32PKT 50-59 years, male 0.7
GTEX-11WQC-0011-R5a-SM-5BC74 60-69 years, male 0.6
GTEX-12WSH-0011-R5b-SM-5P9F3 50-59 years, male 0.6
GTEX-13112-0011-R5b-SM-5DUV8 50-59 years, male 0.6
GTEX-13FHP-0011-R5b-SM-5LZY2 50-59 years, male 0.6
GTEX-13PLJ-0011-R5a-SM-5O9BG 60-69 years, female 0.6
GTEX-144GL-0011-R5b-SM-5PNUJ 50-59 years, male 0.6
GTEX-NPJ7-0011-R5a-SM-33HBK 60-69 years, female 0.6
GTEX-11UD1-0011-R5b-SM-5P9FP 40-49 years, female 0.5
GTEX-139T8-0011-R5b-SM-5J1MO 60-69 years, male 0.5
GTEX-13CF2-0011-R5a-SM-5LZWS 60-69 years, male 0.5
GTEX-YJ89-0011-R5a-SM-4V6GM 60-69 years, male 0.5
GTEX-ZV68-0011-R5a-SM-4YCDW 50-59 years, female 0.5
GTEX-ZVT3-0011-R5a-SM-51MSI 60-69 years, female 0.5
GTEX-13NZA-0011-R5b-SM-5KM4K 60-69 years, male 0.4
GTEX-145MG-0011-R5b-SM-5S2VU 50-59 years, male 0.4
GTEX-1477Z-0011-R5b-SM-5PNUO 60-69 years, male 0.4
GTEX-S7PM-0011-R5A-SM-3NM8G 60-69 years, male 0.4
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

13.6

FANTOM5 sample id

Sample description

Tags Per Million

Caudate nucleus
Tags Per Million: 15.0
FF:10164-103B2 76 years, female 15.0

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