Ontology highlight
ABSTRACT:
SUBMITTER: Zhou W
PROVIDER: S-EPMC5715040 | biostudies-literature | 2017 Oct
REPOSITORIES: biostudies-literature
Zhou Weiqiang W Sherwood Ben B Ji Zhicheng Z Xue Yingchao Y Du Fang F Bai Jiawei J Ying Mingyao M Ji Hongkai H
Nature communications 20171019 1
We evaluate the feasibility of using a biological sample's transcriptome to predict its genome-wide regulatory element activities measured by DNase I hypersensitivity (DH). We develop BIRD, Big Data Regression for predicting DH, to handle this high-dimensional problem. Applying BIRD to the Encyclopedia of DNA Elements (ENCODE) data, we found that to a large extent gene expression predicts DH, and information useful for prediction is contained in the whole transcriptome rather than limited to a r ...[more]