Computational protocol: Cancer associated epigenetic transitions identified by genome-wide histone methylation binding profiles in human colorectal cancer samples and paired normal mucosa

Similar protocols

Protocol publication

[…] Microarray genes expression data sets were downloaded from Gene Expression Omnibus (GEO) public repositories. Expression data was obtained and analyzed using GEOquery and the 'limma' Bioconductor package in R []. Expression data from paired tumor and normal colon mucosa samples from 24 and 9 different CRC patients corresponded to GSE10950 and GSE5364 datasets, respectively. HT29 expression data (GSM277543) was originally generated in parallel with the tissue samples from GSE10950 dataset. […]

Pipeline specifications

Software tools GEOquery, limma
Databases GEO
Application Transcription analysis
Organisms Homo sapiens
Diseases Neoplasms, Colorectal Neoplasms