Bru-seq nascent RNA sequencing of human and mouse cells: correlation to replication timing and genome instability

ABSTRACT: Bru-seq nascent RNA sequencing (PubMed ID 23973811) was performed on two primary human fibroblast cell lines, mouse embryonic stem cells, and GM12878 human lymphoblastoid cells. Read data, which include both exon and intron signals, were used to identify transcription unit spans genome-wide, where a transcription unit is roughly correspondent to the longest expressed isoform of a gene. However, because algorithms were not constrained by annotated genes, transcription units need not and often do not correspond precisely to gene boundaries and include extragenic transcription. Transcription units were then compared to separate data sets that comprised induced copy number variants, common fragile sites, and Repli-seq replication timing. The objective was to discover the relationships between

ORGANISM(S): Homo sapiens

SUBMITTER: Thomas Wilson 

PROVIDER: E-GEOD-55862 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress