The human liver-specific proteome defined by transcriptomics and antibody-based profiling
Journal article, 2014

Human liver physiology and the genetic etiology of the liver diseases can potentially be elucidated through the identification of proteins with enriched expression in the liver. Here, we combined data from RNA sequencing (RNA-Seq) and antibody-based immunohistochemistry across all major human tissues to explore the human liver proteome with enriched expression, as well as the cell type-enriched expression in hepatocyte and bile duct cells. We identified in total 477 protein-coding genes with elevated expression in the liver: 179 genes have higher expression as compared to all the other analyzed tissues; 164 genes have elevated transcript levels in the liver shared with at least one other tissue type; and an additional 134 genes have a mild level of increased expression in the liver. We identified the precise localization of these proteins through antibody-based protein profiling and the subcellular localization of these proteins through immunofluorescent-based profiling. We also identified the biological processes and metabolic functions associated with these proteins, investigated their contribution in the occurrence of liver diseases, and identified potential targets for their treatment. Our study demonstrates the use of RNA-Seq and antibody-based immunohistochemistry for characterizing the human liver proteome, as well as the use of tissue-specific proteins in identification of novel drug targets and discovery of biomarkers.

HEPATOCELLULAR-CARCINOMA

DISEASES

HEPATITIS-C

Cell Biology

ATLAS

Biology

METABOLISM

RNA-SEQ

metabolism

SERUM

TISSUE-SPECIFIC GENES

EXPRESSION

RNA sequencing

DRUGS

Biochemistry & Molecular Biology

immunohistochemistry

Author

C. Kampf

Uppsala University

Adil Mardinoglu

Chalmers, Chemical and Biological Engineering, Life Sciences, System Biology

L. Fagerberg

Royal Institute of Technology (KTH)

B. M. Hallstrom

Royal Institute of Technology (KTH)

K. Edlund

Uppsala University

E. Lundberg

Royal Institute of Technology (KTH)

F. Ponten

Uppsala University

Jens B Nielsen

Chalmers, Chemical and Biological Engineering, Life Sciences, System Biology

M. Uhlen

Royal Institute of Technology (KTH)

FASEB Journal

0892-6638 (ISSN) 1530-6860 (eISSN)

Vol. 28 7 2901-2914

Subject Categories

Biological Sciences

Infrastructure

C3SE (Chalmers Centre for Computational Science and Engineering)

Areas of Advance

Life Science Engineering

DOI

10.1096/fj.14-250555

More information

Latest update

2/28/2018