Serial analysis of chromatin occupancy identifies β-catenin target genes in colorectal carcinoma cells

Gregory Yochum, Shannon McWeeney, Veena Rajaraman, Ryan Cleland, Sandra Peters, Richard H. Goodman

Research output: Contribution to journalArticle

76 Citations (Scopus)

Abstract

Most instances of colorectal cancer are due to abnormalities in the Wnt signaling pathway, resulting in nuclear accumulation of β-catenin. β-Catenin activates transcription of target genes primarily by associating with the T cell factor/lymphoid enhancer-binding factor (TCF/Lef) family of transcription factors. In this report, we use serial analysis of chromatin occupancy (SACO) to identify 412 high-confidence β-catenin targets in HCT116 colorectal carcinoma cells. Of these targets, 84% contained a consensus TCF motif and were occupied by TCR in vivo. Examination of the flanking 5-bp residues in each consensus revealed motif-specific enrichment at neighboring sites. β-Catenin binding was localized to the 5′ promoters, internal regions, and 3′ UTRs of protein-coding genes. Furthermore, 15 components of the canonical Wnt pathway were identified as β-catenin target genes, suggesting that feed-forward and feedback mechanisms exist to modulate the Wnt signal in colon cancer cells.

Original languageEnglish (US)
Pages (from-to)3324-3329
Number of pages6
JournalProceedings of the National Academy of Sciences of the United States of America
Volume104
Issue number9
DOIs
StatePublished - Feb 27 2007

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Catenins
Chromatin
Colorectal Neoplasms
TCF Transcription Factors
Wnt Signaling Pathway
Genes
3' Untranslated Regions
Genetic Promoter Regions
Colonic Neoplasms
Transcription Factors
Proteins

All Science Journal Classification (ASJC) codes

  • Genetics
  • General

Cite this

Yochum, Gregory ; McWeeney, Shannon ; Rajaraman, Veena ; Cleland, Ryan ; Peters, Sandra ; Goodman, Richard H. / Serial analysis of chromatin occupancy identifies β-catenin target genes in colorectal carcinoma cells. In: Proceedings of the National Academy of Sciences of the United States of America. 2007 ; Vol. 104, No. 9. pp. 3324-3329.
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Serial analysis of chromatin occupancy identifies β-catenin target genes in colorectal carcinoma cells. / Yochum, Gregory; McWeeney, Shannon; Rajaraman, Veena; Cleland, Ryan; Peters, Sandra; Goodman, Richard H.

In: Proceedings of the National Academy of Sciences of the United States of America, Vol. 104, No. 9, 27.02.2007, p. 3324-3329.

Research output: Contribution to journalArticle

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AU - Yochum, Gregory

AU - McWeeney, Shannon

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AU - Goodman, Richard H.

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