- This repository contains the TRE data reported in the ChRO-seq paper "Chromatin run-on and sequencing maps the transcriptional regulatory landscape of glioblastoma multiforme" in Nature Genetics (https://www.nature.com/articles/s41588-018-0244-3).
This directory contains TREs called by dREG.HD under the stringent criterion. They reprent active enhancers and promoters identified using ChRO-seq data. (The coordinate is hg19).
This directory contains bed files of tumor-associated TREs (taTRE).
- bed.files : taTRE identified in each primary GBM/pdx sample by excluding DHS sites from normal adult brain samples from TREs in GBM_TRE. This corresponds to the statistics reported in supplementary table 4 of the ChRO-seq paper.
- bad.regions: blacklisted regions reported by ENCODE project.
- all.merged.bed: taTREs merged across samples in bed.files followed by excluding the set in bad.regions.