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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:79.4RPKM
FANTOM5:124.8Tags 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 HPA019006

 

Antibody HPA020595

 

Glial cells

Medium   Not detected  

Neuronal cells

Not detected   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

79.4

GTEx sample id

Sample description

RPKM

Brain - Caudate (basal ganglia)
RPKM: 79.4
Samples: 117

Max RPKM: 184.7
Min RPKM: 34.9
Std RPKM: 22.2
Median RPKM: 77.1
GTEX-13OVJ-0011-R5a-SM-5P9H7 50-59 years, female 184.7
GTEX-13JVG-0011-R5a-SM-5MR4O 60-69 years, male 145.8
GTEX-XMD1-0011-R5A-SM-4AT47 60-69 years, male 125.5
GTEX-13NYB-0011-R5a-SM-5MR45 40-49 years, male 123.1
GTEX-NPJ8-0011-R5a-SM-2HMJY 40-49 years, male 118.7
GTEX-132Q8-0011-R5a-SM-5IJDM 60-69 years, male 116.7
GTEX-13SLW-0011-R5b-SM-5SI6Z 70-79 years, male 114.3
GTEX-13FHO-0011-R5b-SM-5LZZ3 60-69 years, male 113.6
GTEX-13NYS-0011-R5a-SM-5MR4D 60-69 years, male 112.0
GTEX-12ZZX-0011-R5a-SM-5HL89 40-49 years, female 111.6
GTEX-13X6I-0011-R5a-SM-5PNWW 60-69 years, male 109.2
GTEX-13FLV-0011-R5a-SM-5LZWT 50-59 years, male 107.2
GTEX-13OW6-0011-R5a-SM-5O9BK 50-59 years, male 107.0
GTEX-11H98-0011-R5b-SM-57WCF 50-59 years, male 106.9
GTEX-X261-0011-R5A-SM-3NMB4 50-59 years, male 104.4
GTEX-144GO-0011-R5a-SM-5PNUR 60-69 years, male 103.8
GTEX-13RTJ-0011-R5a-SM-5P9HR 60-69 years, male 103.5
GTEX-X585-0011-R5A-SM-46MVI 50-59 years, male 102.3
GTEX-13OW8-0011-R5b-SM-5L3FQ 60-69 years, male 101.0
GTEX-WHSE-0011-R5A-SM-3P5ZO 20-29 years, male 100.7
GTEX-139T8-0011-R5b-SM-5J1MO 60-69 years, male 98.2
GTEX-N7MT-0011-R5a-SM-2I3G6 60-69 years, female 97.1
GTEX-TSE9-0011-R5A-SM-3DB7J 60-69 years, female 96.5
GTEX-X4XX-0011-R5A-SM-46MWN 60-69 years, male 96.0
GTEX-NPJ7-0011-R5a-SM-33HBK 60-69 years, female 94.4
GTEX-Y8DK-0011-R5B-SM-4RTW6 60-69 years, male 93.4
GTEX-13FLW-0011-R5a-SM-5LZX6 50-59 years, male 92.4
GTEX-13OVH-0011-R5b-SM-5KM4L 70-79 years, male 92.1
GTEX-11UD1-0011-R5b-SM-5P9FP 40-49 years, female 91.5
GTEX-RU72-0011-R5A-SM-2TF6U 50-59 years, female 91.4
GTEX-12ZZW-0011-R5a-SM-5DUVN 50-59 years, male 90.3
GTEX-12WSB-0011-R5b-SM-5GU67 60-69 years, female 89.7
GTEX-1445S-0011-R5a-SM-5PNUS 60-69 years, male 89.2
GTEX-13G51-0011-R5a-SM-5L3EB 60-69 years, male 87.5
GTEX-13OW5-0011-R5b-SM-5L3FR 60-69 years, male 87.0
GTEX-13O3Q-0011-R5b-SM-5P9H4 50-59 years, male 86.9
GTEX-12WSA-0011-R5b-SM-5GU5I 60-69 years, male 85.9
GTEX-PWO3-0011-R5A-SM-2I5EZ 60-69 years, female 85.3
GTEX-WVLH-0011-R5A-SM-3MJFW 50-59 years, male 85.0
GTEX-13JUV-0011-R5a-SM-5LZY5 40-49 years, female 84.5
GTEX-XOTO-0011-R5A-SM-4B657 50-59 years, male 84.4
GTEX-139TS-0011-R5b-SM-5J2MZ 60-69 years, male 83.3
GTEX-11GSP-0011-R5a-SM-57WBE 60-69 years, female 82.1
GTEX-13CIG-0011-R5b-SM-5L3F2 50-59 years, male 81.7
GTEX-13FXS-0011-R5b-SM-5LZYE 50-59 years, male 81.3
GTEX-13SLX-0011-R5a-SM-5O9BV 50-59 years, female 81.3
GTEX-14BIM-0011-R5b-SM-5S2RM 60-69 years, female 80.7
GTEX-T6MN-0011-R5A-SM-32QPD 50-59 years, male 80.7
GTEX-1399T-0011-R5b-SM-5IJDK 60-69 years, male 80.4
GTEX-13OW7-0011-R5b-SM-5O9DM 50-59 years, male 80.4
GTEX-13PLJ-0011-R5a-SM-5O9BG 60-69 years, female 80.1
GTEX-ZE7O-0011-R5a-SM-57WBO 50-59 years, female 79.9
GTEX-ZXG5-0011-R5b-SM-57WBN 60-69 years, male 79.7
GTEX-RVPV-0011-R5A-SM-2TF69 60-69 years, male 79.3
GTEX-ZAB4-0011-R5a-SM-4SOKC 40-49 years, male 79.3
GTEX-NL3H-0011-R5a-SM-2I3GB 60-69 years, male 79.0
GTEX-13CZV-0011-R5a-SM-5K7XA 60-69 years, male 78.2
GTEX-WZTO-0011-R5B-SM-3NMC5 40-49 years, male 77.8
GTEX-T5JC-0011-R5A-SM-32PLK 20-29 years, male 77.1
GTEX-13N1W-0011-R5b-SM-5MR5Q 70-79 years, male 75.2
GTEX-Q2AG-0011-R5A-SM-2HMJH 40-49 years, female 75.1
GTEX-ZF28-0011-R5a-SM-4WWCZ 60-69 years, male 74.6
GTEX-R55E-0011-R5A-SM-2TC5N 20-29 years, male 74.3
GTEX-12ZZY-0011-R5a-SM-5EGL9 60-69 years, male 74.2
GTEX-13VXU-0011-R5a-SM-5O9D7 50-59 years, male 73.5
GTEX-ZVT3-0011-R5a-SM-51MSI 60-69 years, female 73.2
GTEX-14BIN-0011-R5b-SM-5SI78 50-59 years, female 72.3
GTEX-ZVZQ-0011-R5b-SM-57WDC 60-69 years, female 72.1
GTEX-13X6K-0011-R5b-SM-5PNUE 60-69 years, female 71.9
GTEX-13OVL-0011-R5b-SM-5L3FU 50-59 years, male 71.1
GTEX-WWYW-0011-R5A-SM-3NB3E 50-59 years, female 71.1
GTEX-QMR6-0011-R5A-SM-32PKT 50-59 years, male 71.0
GTEX-RVPU-0011-R5A-SM-2XCAD 50-59 years, male 70.6
GTEX-13PVQ-0011-R5b-SM-5O9DI 50-59 years, male 70.2
GTEX-QVJO-0011-R5A-SM-2S1QM 60-69 years, female 69.5
GTEX-UTHO-0011-R5A-SM-3GIJD 60-69 years, male 69.2
GTEX-ZV68-0011-R5a-SM-4YCDW 50-59 years, female 69.2
GTEX-NL4W-0011-R5a-SM-2I3GD 50-59 years, male 68.6
GTEX-S7SE-0011-R5A-SM-2XCDA 50-59 years, male 68.3
GTEX-ZUA1-0011-R5b-SM-51MTG 40-49 years, male 68.0
GTEX-12ZZZ-0011-R5a-SM-5EQ4M 60-69 years, male 67.8
GTEX-YFC4-0011-R5a-SM-4RGLR 40-49 years, female 67.7
GTEX-131YS-0011-R5b-SM-5K7YB 60-69 years, female 66.2
GTEX-13S7M-0011-R5b-SM-5P9HS 60-69 years, female 65.9
GTEX-144GL-0011-R5b-SM-5PNUJ 50-59 years, male 65.9
GTEX-N7MS-0011-R5a-SM-2HMK8 60-69 years, male 65.9
GTEX-145LS-0011-R5a-SM-5SI65 60-69 years, female 65.7
GTEX-WL46-0011-R5A-SM-3LK6V 50-59 years, male 65.7
GTEX-12WSC-0011-R5b-SM-5CVNS 50-59 years, male 65.6
GTEX-14ABY-0011-R5b-SM-5SI7B 50-59 years, male 64.4
GTEX-13O3O-0011-R5b-SM-5KM44 60-69 years, female 64.1
GTEX-145MH-0011-R5a-SM-5P9JT 50-59 years, male 63.8
GTEX-13FHP-0011-R5b-SM-5LZY2 50-59 years, male 63.5
GTEX-1313W-0011-R5b-SM-5L3EP 50-59 years, female 63.4
GTEX-ZE9C-0011-R5a-SM-5EGLO 60-69 years, male 62.8
GTEX-11NV4-0011-R5a-SM-5NQ88 60-69 years, male 62.6
GTEX-12WSF-0011-R5a-SM-5HL8K 70-79 years, male 62.5
GTEX-11WQC-0011-R5a-SM-5BC74 60-69 years, male 61.6
GTEX-11OF3-0011-R5a-SM-57WB4 60-69 years, male 61.0
GTEX-P44H-0011-R5A-SM-2XCEX 40-49 years, male 60.7
GTEX-12WSD-0011-R5b-SM-5CVNG 60-69 years, female 60.6
GTEX-1477Z-0011-R5b-SM-5PNUO 60-69 years, male 58.0
GTEX-13X6J-0011-R5b-SM-5PNWT 50-59 years, male 55.8
GTEX-S7PM-0011-R5A-SM-3NM8G 60-69 years, male 55.2
GTEX-OHPN-0011-R5A-SM-2I5FF 60-69 years, female 53.9
GTEX-PVOW-0011-R5A-SM-32PL7 40-49 years, male 53.9
GTEX-OXRN-0011-R5A-SM-2I5EF 50-59 years, male 53.6
GTEX-13112-0011-R5b-SM-5DUV8 50-59 years, male 51.5
GTEX-12WSM-0011-R5a-SM-5EQ4Y 60-69 years, male 50.9
GTEX-YJ89-0011-R5a-SM-4V6GM 60-69 years, male 49.2
GTEX-145MG-0011-R5b-SM-5S2VU 50-59 years, male 48.5
GTEX-Z93S-0011-R5b-SM-4RGNI 50-59 years, male 48.5
GTEX-13CF2-0011-R5a-SM-5LZWS 60-69 years, male 48.2
GTEX-139TT-0011-R5b-SM-5K7W8 60-69 years, male 47.5
GTEX-T2IS-0011-R5A-SM-32QP4 20-29 years, female 40.7
GTEX-13NZA-0011-R5b-SM-5KM4K 60-69 years, male 37.3
GTEX-12WSH-0011-R5b-SM-5P9F3 50-59 years, male 34.9
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

124.8

FANTOM5 sample id

Sample description

Tags Per Million

Caudate nucleus
Tags Per Million: 139.7
FF:10164-103B2 76 years, female 139.7

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