Identifying genes for establishing a multigenic test for hepatocellular carcinoma surveillance in hepatitis C virus-positive cirrhotic patients

Kellie J. Archer, Valeria Mas, Krystle David, Daniel Maluf, Karen Bornstein, Robert A. Fisher

Research output: Contribution to journalArticle

22 Citations (Scopus)

Abstract

In this study, we used the Affymetrix HG-U133A version 2.0 GeneChips to identify genes capable of distinguishing cirrhotic liver tissues with and without hepatocellular carcinoma by modeling the high-dimensional dataset using an L1 penalized logistic regression model, with error estimated using N-fold cross-validation. Genes identified by gene expression microarray included those that have important links to cancer development and progression, including VAMP2, DPP4, CALR, CACNA1C, and EGR1. In addition, the selected molecular markers in the multigenic gene expression classifier were subsequently validated using reverse transcriptasereal time PCR, and an independently acquired gene expression microarray dataset was downloaded from Gene Expression Omnibus. The multigenetic classifier derived herein did similarly or better than standard abdominal ultrasonography and serum α-fetoprotein, which are currently used for hepatocellular carcinoma surveillance. Because early hepatocellular carcinoma diagnosis increases survival by increasing access to therapeutic options, these molecular markers may prove useful for early diagnosis of hepatocellular carcinoma, especially if prospectively validated and translated into gene products that can be reproducibly and reliably tested noninvasively.

Original languageEnglish (US)
Pages (from-to)2929-2932
Number of pages4
JournalCancer Epidemiology Biomarkers and Prevention
Volume18
Issue number11
DOIs
StatePublished - Nov 1 2009

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Hepacivirus
Hepatocellular Carcinoma
Gene Expression
Genes
Vesicle-Associated Membrane Protein 2
Logistic Models
Fetal Proteins
Early Diagnosis
Ultrasonography
Polymerase Chain Reaction
Survival
Liver
Serum
Neoplasms
Datasets
Therapeutics

All Science Journal Classification (ASJC) codes

  • Epidemiology
  • Oncology

Cite this

Identifying genes for establishing a multigenic test for hepatocellular carcinoma surveillance in hepatitis C virus-positive cirrhotic patients. / Archer, Kellie J.; Mas, Valeria; David, Krystle; Maluf, Daniel; Bornstein, Karen; Fisher, Robert A.

In: Cancer Epidemiology Biomarkers and Prevention, Vol. 18, No. 11, 01.11.2009, p. 2929-2932.

Research output: Contribution to journalArticle

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