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TISSUE ATLAS PRIMARY DATA LIVER

GENE/PROTEIN

Antibody validation


Dictionary

Liver

Tissue proteome

Liver

LIVER - 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

HPA:17.5TPM
GTEx:11.9RPKM
FANTOM5:57.5Tags Per Million

LIVER - 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

Bile duct cells:Low
Hepatocytes: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 HPA020637

 

Antibody HPA020728

 

Antibody HPA020734

 

Bile duct cells

Low   Medium   Low  

Hepatocytes

High   High   High  
     
     
     

LIVER - 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

Average TPM

17.5

N/A Female, age 60
Sample 1
TPM: 9.7
overview Male, age 54
Sample 2
TPM: 31.9
Cell types%
Hepatocytes: 80
Fibroblasts: 15
Other cell types: 5
overview Male, age 74
Sample 3
TPM: 14.1
Cell types%
Hepatocytes: 85
Fibroblasts: 5
Other cell types: 10
overview Female, age 62
Sample 4
TPM: 29.6
Cell types%
Hepatocytes: 70
Fibroblasts: 10
Other cell types: 20
overview Male, age 78
Sample 5
TPM: 8.7
Cell types%
Hepatocytes: 75
Fibroblasts: 5
Other cell types: 20
overview Male, age 53
Sample 6
TPM: 15.0
Cell types%
Hepatocytes: 80
Fibroblasts: 5
Other cell types: 15
overview Male, age 77
Sample 7
TPM: 19.2
Cell types%
Hepatocytes: 75
Fibroblasts: 5
Other cell types: 20
overview Female, age 72
Sample 8
TPM: 8.4
Cell types%
Hepatocytes: 50
Fibroblasts: 10
Other cell types: 40
overview Male, age 70
Sample 9
TPM: 20.2
Cell types%
Hepatocytes: 65
Fibroblasts: 10
Other cell types: 25
overview Female, age 23
Sample 10
TPM: 17.9
Cell types%
Hepatocytes: 70
Fibroblasts: 5
Other cell types: 25

LIVER - 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

11.9

GTEx sample id

RPKM

 

Liver

Liver
RPKM: 11.9
Samples: 119

Max RPKM: 61.7
Min RPKM: 2.2
Std RPKM: 9.3
Median RPKM: 9.5
GTEX-ZVT4-0626-SM-5E45T 61.7
GTEX-ZAB4-0826-SM-5LU9D 50.9
GTEX-RWSA-1426-SM-47JXA 34.2
GTEX-13OW6-2626-SM-5IFF2 32.8
GTEX-13PVR-0126-SM-5S2PY 29.4
GTEX-13113-1326-SM-5GCOI 27.7
GTEX-X3Y1-2726-SM-4PQZH 27.6
GTEX-11DXZ-0126-SM-5EGGY 27.2
GTEX-WFON-1726-SM-4LVMQ 26.6
GTEX-OOBJ-0826-SM-3NB2K 26.3
GTEX-11OF3-0726-SM-5BC4Z 26.0
GTEX-Z9EW-0426-SM-5CVM9 26.0
GTEX-13FTW-1126-SM-5J2NV 25.6
GTEX-S4Z8-0526-SM-4AD4T 23.6
GTEX-ZF29-2026-SM-4WWB7 21.9
GTEX-14E1K-0326-SM-5S2PE 21.2
GTEX-ZYT6-0626-SM-5E45V 19.3
GTEX-11NUK-1226-SM-5P9GM 19.2
GTEX-RNOR-1426-SM-48FDJ 19.0
GTEX-14753-1626-SM-5NQ9L 18.0
GTEX-RM2N-1926-SM-48FCU 17.4
GTEX-QV44-0326-SM-4R1KD 17.0
GTEX-ZF2S-3026-SM-4WWCH 16.7
GTEX-12WSM-0726-SM-5GCOW 16.5
GTEX-131YS-1626-SM-5HL6C 16.5
GTEX-14AS3-0126-SM-5Q5F4 16.2
GTEX-11DXY-0526-SM-5EGGQ 16.1
GTEX-145LU-1326-SM-5LU9N 15.9
GTEX-12696-0826-SM-5EGGE 15.6
GTEX-ZVP2-0626-SM-51MSO 15.1
GTEX-11ZVC-0726-SM-5FQT9 15.0
GTEX-11ZTS-1426-SM-5EQMM 14.8
GTEX-12WSD-1426-SM-5GCN9 14.7
GTEX-UTHO-2426-SM-4JBHD 14.6
GTEX-11GSP-0626-SM-5986T 14.5
GTEX-13QJC-0726-SM-5RQJK 14.2
GTEX-QESD-2026-SM-447BI 14.2
GTEX-11NV4-1326-SM-5HL6V 13.4
GTEX-ZAB5-0426-SM-5CVMI 13.2
GTEX-131XH-0626-SM-5LZWH 12.8
GTEX-X4EO-1126-SM-4QARQ 12.7
GTEX-14DAQ-1726-SM-5S2R2 12.1
GTEX-13112-1426-SM-5EGH8 11.9
GTEX-WYVS-1926-SM-4PQZ2 11.7
GTEX-XOTO-0826-SM-4B65O 11.5
GTEX-YEC4-0826-SM-5P9FV 11.2
GTEX-R53T-0326-SM-48FEC 10.9
GTEX-YECK-1926-SM-4W21H 10.9
GTEX-T6MN-1226-SM-3NMA5 10.8
GTEX-X4EP-1026-SM-4QAS5 10.7
GTEX-Y5V5-0926-SM-4VBPZ 10.7
GTEX-14A5I-1726-SM-5QGQ5 10.5
GTEX-UPIC-0926-SM-4IHLV 10.5
GTEX-RN64-1826-SM-48FDV 10.4
GTEX-RTLS-1326-SM-46MUN 10.3
GTEX-13N11-0926-SM-5IJG2 10.2
GTEX-145MF-0826-SM-5QGQA 10.2
GTEX-SJXC-1226-SM-4DM78 10.1
GTEX-WQUQ-1926-SM-4OOSA 9.7
GTEX-1399R-1226-SM-5P9GF 9.5
GTEX-REY6-1226-SM-48FDR 9.5
GTEX-13N2G-0926-SM-5IFGJ 9.1
GTEX-12WSG-0626-SM-5FQTQ 9.0
GTEX-Q734-0326-SM-48U15 8.9
GTEX-1212Z-0226-SM-59HLF 8.6
GTEX-U3ZN-0226-SM-3DB8D 8.6
GTEX-13VXU-0926-SM-5IFFH 8.5
GTEX-ZVT3-1626-SM-5GU66 8.4
GTEX-YFC4-1526-SM-5IFJS 7.7
GTEX-147F4-1426-SM-5LUA8 7.6
GTEX-QDVN-0826-SM-48TZ2 7.5
GTEX-QEG4-1826-SM-4R1JN 7.5
GTEX-X261-1726-SM-4PQYT 7.5
GTEX-11EQ9-0526-SM-5A5JZ 7.2
GTEX-ZZPU-0426-SM-5GZYH 7.2
GTEX-11WQC-0726-SM-5EQMR 7.1
GTEX-13NZB-0626-SM-5IFH6 7.1
GTEX-S32W-1926-SM-4AD63 6.8
GTEX-1269C-0626-SM-5FQSS 6.7
GTEX-145MO-2326-SM-5NQ9K 6.6
GTEX-12ZZZ-1326-SM-59HKW 6.3
GTEX-XBEC-1526-SM-4AT68 6.3
GTEX-13NYB-1026-SM-5IFH3 6.1
GTEX-QEL4-1226-SM-447A4 5.9
GTEX-ZYY3-0626-SM-5NQ6W 5.9
GTEX-ZPU1-0826-SM-57WG2 5.7
GTEX-12WSI-0226-SM-5GCNA 5.6
GTEX-UPK5-1426-SM-4JBHH 5.6
GTEX-139TU-0826-SM-5IJFG 5.5
GTEX-11ZUS-2526-SM-59872 5.3
GTEX-1399T-0826-SM-5IFES 5.3
GTEX-132NY-0926-SM-5P9G3 5.2
GTEX-13FLV-0326-SM-5N9DJ 5.2
GTEX-13SLX-1226-SM-5S2Q6 5.2
GTEX-WZTO-0626-SM-4PQYY 5.1
GTEX-X4XY-1626-SM-46MVN 5.0
GTEX-12WSL-0226-SM-5CVMJ 4.9
GTEX-147JS-1126-SM-5RQIW 4.9
GTEX-YB5E-0326-SM-5IFHU 4.9
GTEX-14C38-1526-SM-5RQJ7 4.8
GTEX-131XE-0326-SM-5LZVO 4.7
GTEX-PX3G-0826-SM-48TZS 4.7
GTEX-12KS4-1326-SM-5LUB3 4.6
GTEX-P78B-1326-SM-3P611 4.4
GTEX-Q2AG-1126-SM-48U1P 4.4
GTEX-TKQ2-1726-SM-4DXUP 4.4
GTEX-13FTZ-0726-SM-5IFFY 3.8
GTEX-Y5LM-0426-SM-4VBRO 3.7
GTEX-13O3O-1826-SM-5IFGW 3.6
GTEX-ZTPG-1426-SM-51MT3 3.5
GTEX-146FH-1526-SM-5NQBU 3.3
GTEX-1497J-0726-SM-5Q5D1 3.3
GTEX-RU72-1426-SM-46MUF 3.1
GTEX-139YR-0226-SM-5IFEM 2.7
GTEX-144GM-1326-SM-5LU5E 2.6
GTEX-139TS-1426-SM-5IFJD 2.5
GTEX-13NZ9-1326-SM-5MR3V 2.2
GTEX-S33H-1626-SM-4AD68 2.2
GTEX-VUSG-0126-SM-4KL1X 2.2
Show all

LIVER - 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

57.5

FANTOM5 sample id

Sample description

Tags Per Million

Liver
Tags Per Million: 57.5
FF:10018-101C9 64,69,70 years, mixed 57.5

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