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Coordinated effects of sequence variation on DNA binding, chromatin structure, and transcription.

ABSTRACT: Nascent transcriptome sequencing (GRO-seq) experiment of 3 human lymphoblastoid cell line samples from the 1000 Genomes sample set (http://www.1000genomes.org/). Dataset includes one parent-daughter trio (CEU populations). This accession contains raw, mapped, and processed GRO-seq read data, other assays in this study are available under accession E-MTAB-1884 (ChIP-seq, https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1884) and E-MTAB-1883 (RNA-seq, https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1883/).

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Homo sapiens

SUBMITTER: Helena Kilpinen 

PROVIDER: E-MTAB-1885 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

DNA sequence variation has been associated with quantitative changes in molecular phenotypes such as gene expression, but its impact on chromatin states is poorly characterized. To understand the interplay between chromatin and genetic control of gene regulation, we quantified allelic variability in transcription factor binding, histone modifications, and gene expression within humans. We found abundant allelic specificity in chromatin and extensive local, short-range, and long-range allelic coo  ...[more]

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