Analysis of mucosal gene expression in inflammatory bowel disease by parallel oligonucleotide arrays

B. K. Dieckgraefe, W. F. Stenson, J. R. Korzenik, P. E. Swanson, Christina (Chris) Harrington

Research output: Contribution to journalArticle

50 Citations (Scopus)

Abstract

DNA arrays capable of simultaneously measuring expression of thousands of genes in clinical specimens from affected and normal individuals have the potential to provide information about disease pathogenesis not previously possible. Few studies have applied mRNA profiling to diseases involving complex tissues like the intestinal mucosa, reflecting the unique challenges inherent to this type of analysis. We report the analysis of mucosal gene expression in ulcerative colitis (UC) patients and inflamed and noninflamed control specimens. Genes can be used as markers for cell recruitment, activation, and mucosal synthesis of immunoregulatory molecules. Self-organizing maps were applied to cluster and analyze gene expression patterns and were paired with histopathological scores to identify genes associated with increased disease activity. Clustering was achieved on the basis of differences in expression levels across individual specimens. Several inflammatory mediators were identified as likely determinants of characteristic histological features of active UC. These results provide proof of principle for application of functional genomics to larger inflammatory bowel disease populations for gene discovery, to facilitate identification of disease subgroups on the basis of gene expression signatures, and for prediction of disease behavior or optimal therapeutic intervention.

Original languageEnglish (US)
Pages (from-to)1-11
Number of pages11
JournalPhysiological Genomics
Volume2001
Issue number4
StatePublished - Feb 2001
Externally publishedYes

Fingerprint

Oligonucleotide Array Sequence Analysis
Inflammatory Bowel Diseases
Gene Expression
Ulcerative Colitis
Cluster Analysis
Genetic Association Studies
Intestinal Mucosa
Genomics
Transcriptome
Genes
Messenger RNA
Population
Therapeutics

Keywords

  • Crohn's disease
  • Gene expression
  • Inflammatory bowel disease
  • Oligonucleotide arrays
  • Ulcerative colitis

ASJC Scopus subject areas

  • Genetics
  • Physiology

Cite this

Analysis of mucosal gene expression in inflammatory bowel disease by parallel oligonucleotide arrays. / Dieckgraefe, B. K.; Stenson, W. F.; Korzenik, J. R.; Swanson, P. E.; Harrington, Christina (Chris).

In: Physiological Genomics, Vol. 2001, No. 4, 02.2001, p. 1-11.

Research output: Contribution to journalArticle

Dieckgraefe, BK, Stenson, WF, Korzenik, JR, Swanson, PE & Harrington, CC 2001, 'Analysis of mucosal gene expression in inflammatory bowel disease by parallel oligonucleotide arrays', Physiological Genomics, vol. 2001, no. 4, pp. 1-11.
Dieckgraefe, B. K. ; Stenson, W. F. ; Korzenik, J. R. ; Swanson, P. E. ; Harrington, Christina (Chris). / Analysis of mucosal gene expression in inflammatory bowel disease by parallel oligonucleotide arrays. In: Physiological Genomics. 2001 ; Vol. 2001, No. 4. pp. 1-11.
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