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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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COHCAP HCT116 Mutant Comparison [expression]

ABSTRACT: Genome-wide expression and methylation differences are compared for a normal HCT116 cell line and a derived mutant with altered DNA methylation patterns. The data compares the effect of a gene mutation on genome-wide expression (and methylation). This data is being published as a technical test of utility for a novel integrative genomic algorithm (COHCAP) Keywords: parental, mutant

ORGANISM(S): Homo sapiens

SUBMITTER: Charles Warden

PROVIDER: E-GEOD-42307 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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COHCAP: an integrative genomic pipeline for single-nucleotide resolution DNA methylation analysis.

Warden Charles D CD Lee Heehyoung H Tompkins Joshua D JD Li Xiaojin X Wang Charles C Riggs Arthur D AD Yu Hua H Jove Richard R Yuan Yate-Ching YC

Nucleic acids research 20130417 11

COHCAP (City of Hope CpG Island Analysis Pipeline) is an algorithm to analyze single-nucleotide resolution DNA methylation data produced by either an Illumina methylation array or targeted bisulfite sequencing. The goal of the COHCAP algorithm is to identify CpG islands that show a consistent pattern of methylation among CpG sites. COHCAP is currently the only DNA methylation package that provides integration with gene expression data to identify a subset of CpG islands that are most likely to r ...[more]

PMID: 23598999

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