Skip to main content
Journal cover image

Genome wide analysis and clinical correlation of chromosomal and transcriptional mutations in cancers of the biliary tract.

Publication ,  Journal Article
Miller, G; Socci, ND; Dhall, D; D'Angelica, M; DeMatteo, RP; Allen, PJ; Singh, B; Fong, Y; Blumgart, LH; Klimstra, DS; Jarnagin, WR
Published in: J Exp Clin Cancer Res
May 12, 2009

BACKGROUND: The pathogenesis of biliary cancers is ill-defined. This study investigates changes in gene expression and copy number in biliary cancers and correlates these changes with anatomical site of origin, histopathology and outcome. METHODS: We performed gene expression and CGH analysis on 34 biliary tract cancer specimens. Results were confirmed by RT-PCR. Clinical-pathologic correlation was made using functional over-representation analysis of the top 100 mutations associated with each variable. RESULTS: There were 545 genes with altered expression in extrahepatic cholangiocarcinoma, 2,354 in intrahepatic cholangiocarcinoma, and 1,281 in gallbladder cancer. Unsupervised hierarchical clustering analysis indicated there was no difference in the global gene expression patterns between each biliary cancer subgroup. CGH analysis revealed that short segments of chromosomes 1p, 3p, 6q, 8p, 9p, and 14q were commonly deleted across all cancer subtypes. Commonly amplified regions included segments of 1q, 3q, 5p, 7p, 7q, 8q, and 20q. Over-representation analysis revealed an association between altered expression of functional gene groupings and pathologic features. CONCLUSION: This study defined regions of the genome associated with changes in DNA copy number and gene expression in specific subtypes of biliary cancers. The findings have implications for identification of therapeutic targets, screening, and prognostication.

Duke Scholars

Altmetric Attention Stats
Dimensions Citation Stats

Published In

J Exp Clin Cancer Res

DOI

EISSN

1756-9966

Publication Date

May 12, 2009

Volume

28

Issue

1

Start / End Page

62

Location

England

Related Subject Headings

  • Transcription, Genetic
  • Oncology & Carcinogenesis
  • Oligonucleotide Array Sequence Analysis
  • Nucleic Acid Hybridization
  • Mutation
  • Middle Aged
  • Male
  • Humans
  • Genome, Human
  • Gene Expression Profiling
 

Citation

APA
Chicago
ICMJE
MLA
NLM
Miller, G., Socci, N. D., Dhall, D., D’Angelica, M., DeMatteo, R. P., Allen, P. J., … Jarnagin, W. R. (2009). Genome wide analysis and clinical correlation of chromosomal and transcriptional mutations in cancers of the biliary tract. J Exp Clin Cancer Res, 28(1), 62. https://doi.org/10.1186/1756-9966-28-62
Miller, George, Nicholas D. Socci, Deepti Dhall, Michael D’Angelica, Ronald P. DeMatteo, Peter J. Allen, Bhuvanesh Singh, et al. “Genome wide analysis and clinical correlation of chromosomal and transcriptional mutations in cancers of the biliary tract.J Exp Clin Cancer Res 28, no. 1 (May 12, 2009): 62. https://doi.org/10.1186/1756-9966-28-62.
Miller G, Socci ND, Dhall D, D’Angelica M, DeMatteo RP, Allen PJ, et al. Genome wide analysis and clinical correlation of chromosomal and transcriptional mutations in cancers of the biliary tract. J Exp Clin Cancer Res. 2009 May 12;28(1):62.
Miller, George, et al. “Genome wide analysis and clinical correlation of chromosomal and transcriptional mutations in cancers of the biliary tract.J Exp Clin Cancer Res, vol. 28, no. 1, May 2009, p. 62. Pubmed, doi:10.1186/1756-9966-28-62.
Miller G, Socci ND, Dhall D, D’Angelica M, DeMatteo RP, Allen PJ, Singh B, Fong Y, Blumgart LH, Klimstra DS, Jarnagin WR. Genome wide analysis and clinical correlation of chromosomal and transcriptional mutations in cancers of the biliary tract. J Exp Clin Cancer Res. 2009 May 12;28(1):62.
Journal cover image

Published In

J Exp Clin Cancer Res

DOI

EISSN

1756-9966

Publication Date

May 12, 2009

Volume

28

Issue

1

Start / End Page

62

Location

England

Related Subject Headings

  • Transcription, Genetic
  • Oncology & Carcinogenesis
  • Oligonucleotide Array Sequence Analysis
  • Nucleic Acid Hybridization
  • Mutation
  • Middle Aged
  • Male
  • Humans
  • Genome, Human
  • Gene Expression Profiling