Extracellular matrix transcriptome dynamics in hepatocellular carcinoma

Michael B Duncan

Research output: Contribution to journalArticle

16 Citations (Scopus)

Abstract

The extracellular matrix undergoes extensive remodeling during hepatocellular carcinoma and functions as a critical component of the tumor microenvironment by providing a substratum for cell adhesion and serving as a reservoir for a variety of cytokines and growth factors. Despite the clinical correlation between ECM deposition and hepatocellular carcinoma progression, it remains unclear how global extracellular matrix gene expression is altered in hepatocellular carcinoma and the molecular pathways that govern this change. Herein, a comprehensive analysis of the extracellular matrix transcriptome using an RNA-sequencing dataset provided by The Cancer Genome Atlas consortium was conducted and indicates substantial differential gene expression of key extracellular matrix collagens, glycoproteins, and proteoglycans in hepatocellular carcinoma. This analysis also reveals alternative expression of extracellular matrix gene transcript variants that could impact biological activity and serves as a framework for exploring the dynamic nature of the extracellular matrix transcriptome in cancer and identifying candidate genes for future exploration.

Original languageEnglish (US)
Pages (from-to)393-398
Number of pages6
JournalMatrix Biology
Volume32
Issue number7-8
DOIs
StatePublished - Oct 1 2013

Fingerprint

Transcriptome
Extracellular Matrix
Hepatocellular Carcinoma
RNA Sequence Analysis
Gene Expression
Tumor Microenvironment
Atlases
Proteoglycans
Cell Adhesion
Genes
Neoplasms
Intercellular Signaling Peptides and Proteins
Glycoproteins
Collagen
Genome
Cytokines

Keywords

  • Cancer
  • Collagen
  • Glycoprotein
  • Proteoglycan
  • RNA-Seq

ASJC Scopus subject areas

  • Molecular Biology

Cite this

Extracellular matrix transcriptome dynamics in hepatocellular carcinoma. / Duncan, Michael B.

In: Matrix Biology, Vol. 32, No. 7-8, 01.10.2013, p. 393-398.

Research output: Contribution to journalArticle

Duncan, Michael B. / Extracellular matrix transcriptome dynamics in hepatocellular carcinoma. In: Matrix Biology. 2013 ; Vol. 32, No. 7-8. pp. 393-398.
@article{aae111e2bbad428fb4b319d306cca89e,
title = "Extracellular matrix transcriptome dynamics in hepatocellular carcinoma",
abstract = "The extracellular matrix undergoes extensive remodeling during hepatocellular carcinoma and functions as a critical component of the tumor microenvironment by providing a substratum for cell adhesion and serving as a reservoir for a variety of cytokines and growth factors. Despite the clinical correlation between ECM deposition and hepatocellular carcinoma progression, it remains unclear how global extracellular matrix gene expression is altered in hepatocellular carcinoma and the molecular pathways that govern this change. Herein, a comprehensive analysis of the extracellular matrix transcriptome using an RNA-sequencing dataset provided by The Cancer Genome Atlas consortium was conducted and indicates substantial differential gene expression of key extracellular matrix collagens, glycoproteins, and proteoglycans in hepatocellular carcinoma. This analysis also reveals alternative expression of extracellular matrix gene transcript variants that could impact biological activity and serves as a framework for exploring the dynamic nature of the extracellular matrix transcriptome in cancer and identifying candidate genes for future exploration.",
keywords = "Cancer, Collagen, Glycoprotein, Proteoglycan, RNA-Seq",
author = "Duncan, {Michael B}",
year = "2013",
month = "10",
day = "1",
doi = "10.1016/j.matbio.2013.05.003",
language = "English (US)",
volume = "32",
pages = "393--398",
journal = "Matrix Biology",
issn = "0945-053X",
publisher = "Elsevier",
number = "7-8",

}

TY - JOUR

T1 - Extracellular matrix transcriptome dynamics in hepatocellular carcinoma

AU - Duncan, Michael B

PY - 2013/10/1

Y1 - 2013/10/1

N2 - The extracellular matrix undergoes extensive remodeling during hepatocellular carcinoma and functions as a critical component of the tumor microenvironment by providing a substratum for cell adhesion and serving as a reservoir for a variety of cytokines and growth factors. Despite the clinical correlation between ECM deposition and hepatocellular carcinoma progression, it remains unclear how global extracellular matrix gene expression is altered in hepatocellular carcinoma and the molecular pathways that govern this change. Herein, a comprehensive analysis of the extracellular matrix transcriptome using an RNA-sequencing dataset provided by The Cancer Genome Atlas consortium was conducted and indicates substantial differential gene expression of key extracellular matrix collagens, glycoproteins, and proteoglycans in hepatocellular carcinoma. This analysis also reveals alternative expression of extracellular matrix gene transcript variants that could impact biological activity and serves as a framework for exploring the dynamic nature of the extracellular matrix transcriptome in cancer and identifying candidate genes for future exploration.

AB - The extracellular matrix undergoes extensive remodeling during hepatocellular carcinoma and functions as a critical component of the tumor microenvironment by providing a substratum for cell adhesion and serving as a reservoir for a variety of cytokines and growth factors. Despite the clinical correlation between ECM deposition and hepatocellular carcinoma progression, it remains unclear how global extracellular matrix gene expression is altered in hepatocellular carcinoma and the molecular pathways that govern this change. Herein, a comprehensive analysis of the extracellular matrix transcriptome using an RNA-sequencing dataset provided by The Cancer Genome Atlas consortium was conducted and indicates substantial differential gene expression of key extracellular matrix collagens, glycoproteins, and proteoglycans in hepatocellular carcinoma. This analysis also reveals alternative expression of extracellular matrix gene transcript variants that could impact biological activity and serves as a framework for exploring the dynamic nature of the extracellular matrix transcriptome in cancer and identifying candidate genes for future exploration.

KW - Cancer

KW - Collagen

KW - Glycoprotein

KW - Proteoglycan

KW - RNA-Seq

UR - http://www.scopus.com/inward/record.url?scp=84889090470&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84889090470&partnerID=8YFLogxK

U2 - 10.1016/j.matbio.2013.05.003

DO - 10.1016/j.matbio.2013.05.003

M3 - Article

VL - 32

SP - 393

EP - 398

JO - Matrix Biology

JF - Matrix Biology

SN - 0945-053X

IS - 7-8

ER -