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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:47.4RPKM
FANTOM5:205.2Tags 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:High
Neuronal cells:High
 

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 HPA001097

 

Glial cells

High  

Neuronal cells

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

47.4

GTEx sample id

Sample description

RPKM

Brain - Caudate (basal ganglia)
RPKM: 47.4
Samples: 117

Max RPKM: 88.7
Min RPKM: 14.6
Std RPKM: 16.0
Median RPKM: 46.3
GTEX-139TT-0011-R5b-SM-5K7W8 60-69 years, male 88.7
GTEX-13FHO-0011-R5b-SM-5LZZ3 60-69 years, male 88.3
GTEX-Q2AG-0011-R5A-SM-2HMJH 40-49 years, female 86.1
GTEX-QVJO-0011-R5A-SM-2S1QM 60-69 years, female 82.0
GTEX-T6MN-0011-R5A-SM-32QPD 50-59 years, male 81.4
GTEX-ZAB4-0011-R5a-SM-4SOKC 40-49 years, male 79.2
GTEX-13O3Q-0011-R5b-SM-5P9H4 50-59 years, male 76.3
GTEX-13G51-0011-R5a-SM-5L3EB 60-69 years, male 74.0
GTEX-N7MT-0011-R5a-SM-2I3G6 60-69 years, female 73.0
GTEX-T5JC-0011-R5A-SM-32PLK 20-29 years, male 70.8
GTEX-131YS-0011-R5b-SM-5K7YB 60-69 years, female 70.3
GTEX-N7MS-0011-R5a-SM-2HMK8 60-69 years, male 67.3
GTEX-145MH-0011-R5a-SM-5P9JT 50-59 years, male 66.5
GTEX-11H98-0011-R5b-SM-57WCF 50-59 years, male 65.7
GTEX-RU72-0011-R5A-SM-2TF6U 50-59 years, female 65.6
GTEX-13OVJ-0011-R5a-SM-5P9H7 50-59 years, female 65.1
GTEX-R55E-0011-R5A-SM-2TC5N 20-29 years, male 64.8
GTEX-S7SE-0011-R5A-SM-2XCDA 50-59 years, male 64.7
GTEX-12ZZY-0011-R5a-SM-5EGL9 60-69 years, male 63.4
GTEX-11GSP-0011-R5a-SM-57WBE 60-69 years, female 61.9
GTEX-1313W-0011-R5b-SM-5L3EP 50-59 years, female 61.9
GTEX-13SLX-0011-R5a-SM-5O9BV 50-59 years, female 61.6
GTEX-13NYS-0011-R5a-SM-5MR4D 60-69 years, male 61.1
GTEX-WVLH-0011-R5A-SM-3MJFW 50-59 years, male 61.1
GTEX-13RTJ-0011-R5a-SM-5P9HR 60-69 years, male 60.7
GTEX-13JVG-0011-R5a-SM-5MR4O 60-69 years, male 60.1
GTEX-WHSE-0011-R5A-SM-3P5ZO 20-29 years, male 59.8
GTEX-UTHO-0011-R5A-SM-3GIJD 60-69 years, male 59.6
GTEX-145LS-0011-R5a-SM-5SI65 60-69 years, female 57.7
GTEX-11OF3-0011-R5a-SM-57WB4 60-69 years, male 57.3
GTEX-14BIM-0011-R5b-SM-5S2RM 60-69 years, female 57.2
GTEX-13OW6-0011-R5a-SM-5O9BK 50-59 years, male 55.3
GTEX-13OW8-0011-R5b-SM-5L3FQ 60-69 years, male 55.1
GTEX-12ZZZ-0011-R5a-SM-5EQ4M 60-69 years, male 54.7
GTEX-13N1W-0011-R5b-SM-5MR5Q 70-79 years, male 54.3
GTEX-13FLW-0011-R5a-SM-5LZX6 50-59 years, male 53.7
GTEX-13VXU-0011-R5a-SM-5O9D7 50-59 years, male 53.7
GTEX-13X6K-0011-R5b-SM-5PNUE 60-69 years, female 53.7
GTEX-WWYW-0011-R5A-SM-3NB3E 50-59 years, female 53.3
GTEX-WZTO-0011-R5B-SM-3NMC5 40-49 years, male 53.1
GTEX-132Q8-0011-R5a-SM-5IJDM 60-69 years, male 51.7
GTEX-13FLV-0011-R5a-SM-5LZWT 50-59 years, male 51.6
GTEX-13OVL-0011-R5b-SM-5L3FU 50-59 years, male 51.5
GTEX-13OW5-0011-R5b-SM-5L3FR 60-69 years, male 51.5
GTEX-12WSC-0011-R5b-SM-5CVNS 50-59 years, male 51.3
GTEX-Y8DK-0011-R5B-SM-4RTW6 60-69 years, male 51.2
GTEX-13X6J-0011-R5b-SM-5PNWT 50-59 years, male 50.5
GTEX-13OW7-0011-R5b-SM-5O9DM 50-59 years, male 50.3
GTEX-13X6I-0011-R5a-SM-5PNWW 60-69 years, male 49.4
GTEX-13FXS-0011-R5b-SM-5LZYE 50-59 years, male 49.1
GTEX-13JUV-0011-R5a-SM-5LZY5 40-49 years, female 49.0
GTEX-12WSB-0011-R5b-SM-5GU67 60-69 years, female 48.8
GTEX-14ABY-0011-R5b-SM-5SI7B 50-59 years, male 48.6
GTEX-ZUA1-0011-R5b-SM-51MTG 40-49 years, male 48.6
GTEX-NPJ8-0011-R5a-SM-2HMJY 40-49 years, male 48.5
GTEX-RVPV-0011-R5A-SM-2TF69 60-69 years, male 48.0
GTEX-XMD1-0011-R5A-SM-4AT47 60-69 years, male 47.7
GTEX-13O3O-0011-R5b-SM-5KM44 60-69 years, female 46.9
GTEX-13OVH-0011-R5b-SM-5KM4L 70-79 years, male 46.3
GTEX-WL46-0011-R5A-SM-3LK6V 50-59 years, male 46.2
GTEX-ZVZQ-0011-R5b-SM-57WDC 60-69 years, female 46.2
GTEX-13CZV-0011-R5a-SM-5K7XA 60-69 years, male 45.5
GTEX-1399T-0011-R5b-SM-5IJDK 60-69 years, male 44.9
GTEX-13S7M-0011-R5b-SM-5P9HS 60-69 years, female 44.5
GTEX-PVOW-0011-R5A-SM-32PL7 40-49 years, male 44.4
GTEX-13SLW-0011-R5b-SM-5SI6Z 70-79 years, male 44.2
GTEX-PWO3-0011-R5A-SM-2I5EZ 60-69 years, female 44.2
GTEX-X4XX-0011-R5A-SM-46MWN 60-69 years, male 42.6
GTEX-12WSM-0011-R5a-SM-5EQ4Y 60-69 years, male 42.4
GTEX-P44H-0011-R5A-SM-2XCEX 40-49 years, male 42.4
GTEX-NL3H-0011-R5a-SM-2I3GB 60-69 years, male 41.3
GTEX-ZE7O-0011-R5a-SM-57WBO 50-59 years, female 41.3
GTEX-ZXG5-0011-R5b-SM-57WBN 60-69 years, male 41.1
GTEX-OXRN-0011-R5A-SM-2I5EF 50-59 years, male 40.9
GTEX-11NV4-0011-R5a-SM-5NQ88 60-69 years, male 40.7
GTEX-13NYB-0011-R5a-SM-5MR45 40-49 years, male 40.7
GTEX-XOTO-0011-R5A-SM-4B657 50-59 years, male 40.7
GTEX-T2IS-0011-R5A-SM-32QP4 20-29 years, female 40.0
GTEX-1445S-0011-R5a-SM-5PNUS 60-69 years, male 39.5
GTEX-ZE9C-0011-R5a-SM-5EGLO 60-69 years, male 39.5
GTEX-NPJ7-0011-R5a-SM-33HBK 60-69 years, female 39.2
GTEX-139T8-0011-R5b-SM-5J1MO 60-69 years, male 38.4
GTEX-12WSD-0011-R5b-SM-5CVNG 60-69 years, female 38.2
GTEX-12ZZW-0011-R5a-SM-5DUVN 50-59 years, male 37.7
GTEX-TSE9-0011-R5A-SM-3DB7J 60-69 years, female 37.6
GTEX-YFC4-0011-R5a-SM-4RGLR 40-49 years, female 37.6
GTEX-144GO-0011-R5a-SM-5PNUR 60-69 years, male 36.2
GTEX-X585-0011-R5A-SM-46MVI 50-59 years, male 36.1
GTEX-NL4W-0011-R5a-SM-2I3GD 50-59 years, male 35.9
GTEX-X261-0011-R5A-SM-3NMB4 50-59 years, male 35.3
GTEX-12ZZX-0011-R5a-SM-5HL89 40-49 years, female 35.0
GTEX-12WSA-0011-R5b-SM-5GU5I 60-69 years, male 34.7
GTEX-Z93S-0011-R5b-SM-4RGNI 50-59 years, male 34.5
GTEX-12WSF-0011-R5a-SM-5HL8K 70-79 years, male 33.9
GTEX-ZV68-0011-R5a-SM-4YCDW 50-59 years, female 33.6
GTEX-13PVQ-0011-R5b-SM-5O9DI 50-59 years, male 33.5
GTEX-ZF28-0011-R5a-SM-4WWCZ 60-69 years, male 33.2
GTEX-11UD1-0011-R5b-SM-5P9FP 40-49 years, female 31.7
GTEX-13CIG-0011-R5b-SM-5L3F2 50-59 years, male 31.7
GTEX-14BIN-0011-R5b-SM-5SI78 50-59 years, female 30.7
GTEX-OHPN-0011-R5A-SM-2I5FF 60-69 years, female 30.2
GTEX-RVPU-0011-R5A-SM-2XCAD 50-59 years, male 28.7
GTEX-139TS-0011-R5b-SM-5J2MZ 60-69 years, male 28.6
GTEX-13FHP-0011-R5b-SM-5LZY2 50-59 years, male 28.0
GTEX-QMR6-0011-R5A-SM-32PKT 50-59 years, male 27.6
GTEX-13112-0011-R5b-SM-5DUV8 50-59 years, male 27.3
GTEX-ZVT3-0011-R5a-SM-51MSI 60-69 years, female 27.0
GTEX-144GL-0011-R5b-SM-5PNUJ 50-59 years, male 26.2
GTEX-12WSH-0011-R5b-SM-5P9F3 50-59 years, male 25.1
GTEX-YJ89-0011-R5a-SM-4V6GM 60-69 years, male 24.6
GTEX-13CF2-0011-R5a-SM-5LZWS 60-69 years, male 24.4
GTEX-13PLJ-0011-R5a-SM-5O9BG 60-69 years, female 22.2
GTEX-11WQC-0011-R5a-SM-5BC74 60-69 years, male 22.1
GTEX-S7PM-0011-R5A-SM-3NM8G 60-69 years, male 18.0
GTEX-145MG-0011-R5b-SM-5S2VU 50-59 years, male 17.1
GTEX-1477Z-0011-R5b-SM-5PNUO 60-69 years, male 14.8
GTEX-13NZA-0011-R5b-SM-5KM4K 60-69 years, male 14.6
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

205.2

FANTOM5 sample id

Sample description

Tags Per Million

Caudate nucleus
Tags Per Million: 172.1
FF:10164-103B2 76 years, female 172.1

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