Gene set: HDACI_COLON_BUT2HRS_DN

Standard name HDACI_COLON_BUT2HRS_DN
Brief description Downregulated by butyrate at 2 hrs in SW260 colon carcinoma cells
Full description or abstract AB - The short-chain fatty acid butyrate produced by microbial fermentation of dietary fiber in the large intestine is a physiological regulator of major pathways of colonic epithelial cell maturation cell cycle arrest lineage-specific differentiation and apoptosis. Microarray analysis of 8 063 sequences demonstrated a complex cascade of reprogramming of SW620 colonic epithelial cells upon treatment with butyrate characterized by the progressive recruitment of gene sets as a function of time. Comparison with the effects of trichostatin A in conjunction with differences in the kinetics of alteration of histone acetylation induced by butyrate and trichostatin A identified subsets of induced and repressed genes likely coordinately regulated by altered histone acetylation. The butyrate response was also compared in detail with that of sulindac a nonsteroidal anti-inflammatory drug with significant chemopreventive activity for colon cancer and curcumin a component of mustard and curry structurally and functionally related to sulindac that also has chemopreventive activity. Although gene clusters were identified that showed similar responses to butyrate and sulindac the data were characterized by the extensive differences in the effects of the two agents. This was striking for functional classes of genes involved in signaling pathways and in cell cycle progression although butyrate and sulindac induce a similar G0-G1 arrest elevation of beta-catenin-Tcf signaling and apoptotic cascade. As regards cell cycle arrest the underlying mechanism in response to butyrate was most similar to that of the Caco-2 cell line that had spontaneously undergone a G0-G1 arrest and least similar to the G2-M arrest stimulated by curcumin. Thus high-throughput microarray analysis of gene expression profiles can be used to characterize and distinguish the mechanisms of response of colonic epithelial cells to physiological and pharmacological inducers of cell maturation. This has important implications for characterization of chemopreventive agents and recognition of potential toxicity and synergies. The data bases gene clusters and analyses are available at http // sequence.aecom.yu.edu/genome/.
Collection C2: curated gene sets
CGP: chemical and genetic perturbations
Source publication Pubmed 10969808 Authors: Mariadason JM,Corner GA,Augenlicht LH
Related gene sets
(click to toggle related gene sets)		 additional gene sets from the source publication


External links
Organism Human
Contributed by L2L John Newman (Washington University)
Source Platform GENE_SYMBOL
Download gene set format: grp | text | gmt | gmx | xml
Annotate by computing overlaps C1: positional gene sets
C2: curated gene sets
      CGP: chemical and genetic perturbations
      CP: canonical pathways
C3: motif gene sets
      MIR: microRNA targets
      TFT: transcription factor targets
C4: computational gene sets
      CM: cancer modules
      CGN: cancer gene neighborhoods
C5: GO gene sets
      CC: GO cellular component
      BP: GO biological process
      MF: GO molecular function
Compendia expression profiles Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)
Advanced query Annotate and analyze these 13 genes
Gene families Categorize these 13 genes by gene family
Show 13 genes (show)