Dataset features

Specifications


Application: BS-seq analysis
Number of samples: 51
Release date: Nov 17 2016
Last update date: Nov 27 2018
Access: Public
Diseases: Breast Neoplasms, Neoplasms, Brachydactyly
Dataset link Epigenomic deconvolution of breast tumors reveals metabolic coupling between constituent cell types

Experimental Protocol


Epigenomic Deconvolution was applied to the set of 39 primary breast tumor methylation profiles to infer average methylation profiles of constituent cell types and proportions of constituent cell types in each sample. Estimated methylation profiles of constituent cell types were compared (Pearson correlation) against methylation profiles of 6 breast cancer cell lines, CD8+ T-cell, HMEC cell line, and cancer associated fibroblast cell line. Comparison results indicate that, starting from breast tumor methylation profiles, the deconvolution technique was able to infer methylation profiles of constituent cell types that resembled those of cell types expected to be the major constituents of breast tumor tissue samples.

Repositories


GEO

GSE87297

BioProject

PRJNA344072

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Contact


Ronak Patel