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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:19.6RPKM
FANTOM5:83.7Tags 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 HPA039757

 

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

19.6

GTEx sample id

Sample description

RPKM

Brain - Caudate (basal ganglia)
RPKM: 19.6
Samples: 117

Max RPKM: 39.9
Min RPKM: 7.7
Std RPKM: 5.0
Median RPKM: 19.2
GTEX-13OVJ-0011-R5a-SM-5P9H7 50-59 years, female 39.9
GTEX-1445S-0011-R5a-SM-5PNUS 60-69 years, male 33.8
GTEX-13S7M-0011-R5b-SM-5P9HS 60-69 years, female 31.7
GTEX-13JVG-0011-R5a-SM-5MR4O 60-69 years, male 29.7
GTEX-X261-0011-R5A-SM-3NMB4 50-59 years, male 28.9
GTEX-13FHO-0011-R5b-SM-5LZZ3 60-69 years, male 27.0
GTEX-Q2AG-0011-R5A-SM-2HMJH 40-49 years, female 27.0
GTEX-13FLV-0011-R5a-SM-5LZWT 50-59 years, male 26.4
GTEX-13OVH-0011-R5b-SM-5KM4L 70-79 years, male 26.4
GTEX-11H98-0011-R5b-SM-57WCF 50-59 years, male 26.1
GTEX-13RTJ-0011-R5a-SM-5P9HR 60-69 years, male 25.2
GTEX-13CZV-0011-R5a-SM-5K7XA 60-69 years, male 25.1
GTEX-13O3Q-0011-R5b-SM-5P9H4 50-59 years, male 25.1
GTEX-13OW6-0011-R5a-SM-5O9BK 50-59 years, male 25.1
GTEX-11UD1-0011-R5b-SM-5P9FP 40-49 years, female 25.0
GTEX-RVPV-0011-R5A-SM-2TF69 60-69 years, male 25.0
GTEX-13SLW-0011-R5b-SM-5SI6Z 70-79 years, male 24.9
GTEX-13FXS-0011-R5b-SM-5LZYE 50-59 years, male 24.8
GTEX-13SLX-0011-R5a-SM-5O9BV 50-59 years, female 24.8
GTEX-Y8DK-0011-R5B-SM-4RTW6 60-69 years, male 24.8
GTEX-XMD1-0011-R5A-SM-4AT47 60-69 years, male 24.5
GTEX-13X6K-0011-R5b-SM-5PNUE 60-69 years, female 24.0
GTEX-13FLW-0011-R5a-SM-5LZX6 50-59 years, male 23.9
GTEX-13NYB-0011-R5a-SM-5MR45 40-49 years, male 23.8
GTEX-13OW8-0011-R5b-SM-5L3FQ 60-69 years, male 23.7
GTEX-14BIM-0011-R5b-SM-5S2RM 60-69 years, female 23.5
GTEX-13OW7-0011-R5b-SM-5O9DM 50-59 years, male 23.0
GTEX-11GSP-0011-R5a-SM-57WBE 60-69 years, female 22.7
GTEX-R55E-0011-R5A-SM-2TC5N 20-29 years, male 22.6
GTEX-RU72-0011-R5A-SM-2TF6U 50-59 years, female 22.6
GTEX-T6MN-0011-R5A-SM-32QPD 50-59 years, male 22.6
GTEX-12WSM-0011-R5a-SM-5EQ4Y 60-69 years, male 22.5
GTEX-WZTO-0011-R5B-SM-3NMC5 40-49 years, male 22.4
GTEX-QVJO-0011-R5A-SM-2S1QM 60-69 years, female 22.3
GTEX-ZVZQ-0011-R5b-SM-57WDC 60-69 years, female 22.3
GTEX-ZAB4-0011-R5a-SM-4SOKC 40-49 years, male 22.0
GTEX-ZXG5-0011-R5b-SM-57WBN 60-69 years, male 22.0
GTEX-13OVL-0011-R5b-SM-5L3FU 50-59 years, male 21.9
GTEX-X4XX-0011-R5A-SM-46MWN 60-69 years, male 21.9
GTEX-14BIN-0011-R5b-SM-5SI78 50-59 years, female 21.7
GTEX-WVLH-0011-R5A-SM-3MJFW 50-59 years, male 21.7
GTEX-12ZZZ-0011-R5a-SM-5EQ4M 60-69 years, male 21.5
GTEX-13G51-0011-R5a-SM-5L3EB 60-69 years, male 21.5
GTEX-12ZZY-0011-R5a-SM-5EGL9 60-69 years, male 21.1
GTEX-13O3O-0011-R5b-SM-5KM44 60-69 years, female 21.1
GTEX-N7MS-0011-R5a-SM-2HMK8 60-69 years, male 20.8
GTEX-T5JC-0011-R5A-SM-32PLK 20-29 years, male 20.8
GTEX-ZE7O-0011-R5a-SM-57WBO 50-59 years, female 20.5
GTEX-N7MT-0011-R5a-SM-2I3G6 60-69 years, female 20.4
GTEX-12ZZX-0011-R5a-SM-5HL89 40-49 years, female 20.3
GTEX-145MH-0011-R5a-SM-5P9JT 50-59 years, male 20.3
GTEX-12ZZW-0011-R5a-SM-5DUVN 50-59 years, male 20.2
GTEX-131YS-0011-R5b-SM-5K7YB 60-69 years, female 20.1
GTEX-144GL-0011-R5b-SM-5PNUJ 50-59 years, male 20.1
GTEX-XOTO-0011-R5A-SM-4B657 50-59 years, male 20.1
GTEX-YFC4-0011-R5a-SM-4RGLR 40-49 years, female 20.0
GTEX-ZV68-0011-R5a-SM-4YCDW 50-59 years, female 19.5
GTEX-X585-0011-R5A-SM-46MVI 50-59 years, male 19.3
GTEX-S7SE-0011-R5A-SM-2XCDA 50-59 years, male 19.2
GTEX-13N1W-0011-R5b-SM-5MR5Q 70-79 years, male 19.0
GTEX-NL4W-0011-R5a-SM-2I3GD 50-59 years, male 19.0
GTEX-13112-0011-R5b-SM-5DUV8 50-59 years, male 18.9
GTEX-14ABY-0011-R5b-SM-5SI7B 50-59 years, male 18.8
GTEX-ZUA1-0011-R5b-SM-51MTG 40-49 years, male 18.6
GTEX-144GO-0011-R5a-SM-5PNUR 60-69 years, male 18.5
GTEX-13FHP-0011-R5b-SM-5LZY2 50-59 years, male 18.4
GTEX-P44H-0011-R5A-SM-2XCEX 40-49 years, male 18.3
GTEX-RVPU-0011-R5A-SM-2XCAD 50-59 years, male 18.2
GTEX-13OW5-0011-R5b-SM-5L3FR 60-69 years, male 18.0
GTEX-ZF28-0011-R5a-SM-4WWCZ 60-69 years, male 18.0
GTEX-11WQC-0011-R5a-SM-5BC74 60-69 years, male 17.7
GTEX-S7PM-0011-R5A-SM-3NM8G 60-69 years, male 17.4
GTEX-13X6I-0011-R5a-SM-5PNWW 60-69 years, male 17.3
GTEX-ZVT3-0011-R5a-SM-51MSI 60-69 years, female 17.3
GTEX-13PLJ-0011-R5a-SM-5O9BG 60-69 years, female 17.2
GTEX-13VXU-0011-R5a-SM-5O9D7 50-59 years, male 17.2
GTEX-PVOW-0011-R5A-SM-32PL7 40-49 years, male 17.1
GTEX-1399T-0011-R5b-SM-5IJDK 60-69 years, male 16.9
GTEX-12WSD-0011-R5b-SM-5CVNG 60-69 years, female 16.8
GTEX-13X6J-0011-R5b-SM-5PNWT 50-59 years, male 16.7
GTEX-139T8-0011-R5b-SM-5J1MO 60-69 years, male 16.6
GTEX-145LS-0011-R5a-SM-5SI65 60-69 years, female 16.5
GTEX-TSE9-0011-R5A-SM-3DB7J 60-69 years, female 16.5
GTEX-UTHO-0011-R5A-SM-3GIJD 60-69 years, male 16.5
GTEX-145MG-0011-R5b-SM-5S2VU 50-59 years, male 16.3
GTEX-139TS-0011-R5b-SM-5J2MZ 60-69 years, male 16.2
GTEX-13PVQ-0011-R5b-SM-5O9DI 50-59 years, male 16.2
GTEX-NPJ8-0011-R5a-SM-2HMJY 40-49 years, male 16.2
GTEX-11NV4-0011-R5a-SM-5NQ88 60-69 years, male 16.1
GTEX-1313W-0011-R5b-SM-5L3EP 50-59 years, female 16.1
GTEX-QMR6-0011-R5A-SM-32PKT 50-59 years, male 16.1
GTEX-WL46-0011-R5A-SM-3LK6V 50-59 years, male 16.1
GTEX-YJ89-0011-R5a-SM-4V6GM 60-69 years, male 16.0
GTEX-ZE9C-0011-R5a-SM-5EGLO 60-69 years, male 15.9
GTEX-12WSC-0011-R5b-SM-5CVNS 50-59 years, male 15.8
GTEX-OXRN-0011-R5A-SM-2I5EF 50-59 years, male 15.7
GTEX-12WSB-0011-R5b-SM-5GU67 60-69 years, female 15.5
GTEX-WWYW-0011-R5A-SM-3NB3E 50-59 years, female 15.1
GTEX-11OF3-0011-R5a-SM-57WB4 60-69 years, male 14.9
GTEX-PWO3-0011-R5A-SM-2I5EZ 60-69 years, female 14.8
GTEX-132Q8-0011-R5a-SM-5IJDM 60-69 years, male 14.6
GTEX-12WSF-0011-R5a-SM-5HL8K 70-79 years, male 14.3
GTEX-13CF2-0011-R5a-SM-5LZWS 60-69 years, male 14.2
GTEX-13JUV-0011-R5a-SM-5LZY5 40-49 years, female 14.1
GTEX-13NZA-0011-R5b-SM-5KM4K 60-69 years, male 13.9
GTEX-NPJ7-0011-R5a-SM-33HBK 60-69 years, female 13.8
GTEX-NL3H-0011-R5a-SM-2I3GB 60-69 years, male 13.6
GTEX-OHPN-0011-R5A-SM-2I5FF 60-69 years, female 13.5
GTEX-13NYS-0011-R5a-SM-5MR4D 60-69 years, male 13.3
GTEX-139TT-0011-R5b-SM-5K7W8 60-69 years, male 12.8
GTEX-1477Z-0011-R5b-SM-5PNUO 60-69 years, male 11.8
GTEX-WHSE-0011-R5A-SM-3P5ZO 20-29 years, male 11.8
GTEX-13CIG-0011-R5b-SM-5L3F2 50-59 years, male 11.7
GTEX-Z93S-0011-R5b-SM-4RGNI 50-59 years, male 11.0
GTEX-12WSH-0011-R5b-SM-5P9F3 50-59 years, male 9.0
GTEX-T2IS-0011-R5A-SM-32QP4 20-29 years, female 8.9
GTEX-12WSA-0011-R5b-SM-5GU5I 60-69 years, male 7.7
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

83.7

FANTOM5 sample id

Sample description

Tags Per Million

Caudate nucleus
Tags Per Million: 87.3
FF:10164-103B2 76 years, female 87.3

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