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Characterization of the RNA content of chromatin

ABSTRACT: We deep sequenced chromatin-associated RNAs (CARs) from human fibroblast (HF) cells. This resulted in the identification of 141 intronic regions and 74 intergenic regions harbouring CARS. We purified CARs from normal HFs by isolating soluble chromatin after MNase treatment, followed by separation of chromatin fragments of different lengths on a sucrose gradient. CARs were converted into double-stranded cDNAs and sequenced using the Illumina Genome Analyzer I.

ORGANISM(S): Homo sapiens

SUBMITTER: Anders Isaksson

PROVIDER: E-GEOD-21227 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Characterization of the RNA content of chromatin.

Mondal Tanmoy T Rasmussen Markus M Pandey Gaurav Kumar GK Isaksson Anders A Kanduri Chandrasekhar C

Genome research 20100419 7

Noncoding RNA (ncRNA) constitutes a significant portion of the mammalian transcriptome. Emerging evidence suggests that it regulates gene expression in cis or trans by modulating the chromatin structure. To uncover the functional role of ncRNA in chromatin organization, we deep sequenced chromatin-associated RNAs (CARs) from human fibroblast (HF) cells. This resulted in the identification of 141 intronic regions and 74 intergenic regions harboring CARs. The intronic and intergenic CARs show sign ...[more]

PMID: 20404130

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