Human Gene Set: WEBER_METHYLATED_IN_COLON_CANCER


Standard name WEBER_METHYLATED_IN_COLON_CANCER
Systematic name M14473
Brief description Genes identified as hypermethylated in SW48 cells (colon cancer).
Full description or abstract Cytosine methylation is required for mammalian development and is often perturbed in human cancer. To determine how this epigenetic modification is distributed in the genomes of primary and transformed cells, we used an immunocapturing approach followed by DNA microarray analysis to generate methylation profiles of all human chromosomes at 80-kb resolution and for a large set of CpG islands. In primary cells we identified broad genomic regions of differential methylation with higher levels in gene-rich neighborhoods. Female and male cells had indistinguishable profiles for autosomes but differences on the X chromosome. The inactive X chromosome (Xi) was hypermethylated at only a subset of gene-rich regions and, unexpectedly, overall hypomethylated relative to its active counterpart. The chromosomal methylation profile of transformed cells was similar to that of primary cells. Nevertheless, we detected large genomic segments with hypomethylation in the transformed cell residing in gene-poor areas. Furthermore, analysis of 6,000 CpG islands showed that only a small set of promoters was methylated differentially, suggesting that aberrant methylation of CpG island promoters in malignancy might be less frequent than previously hypothesized.
Collection C2: Curated
      CGP: Chemical and Genetic Perturbations
Source publication Pubmed 16007088   Authors: Weber M,Davies JJ,Wittig D,Oakeley EJ,Haase M,Lam WL,Schübeler D
Exact source Table 1
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Organism Homo sapiens
Contributed by John Newman (University of Washington)
Source platform HUMAN_SEQ_ACCESSION
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Compendia expression profiles ? GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)
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Version history 3.0: Renamed from HYPERME_COLONCA_SW48

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