Genomics

Dataset Information

15

Permanganate ChIP-seq analysis of Pol II in nonheat shocked and heat shocked Drosophila S2R+ cells and nonheat shocked BG3 cells


ABSTRACT: The genomic distribution of transcriptionally engaged Pol II in control and heat shocked cells was determined by combining formaldehyde crosslinking and permanganate oxidation of transcription bubbles Cells treated in succession with formaldehyde and then permanganate, were subjected to chromatin precipitation with Rpb3 antibody, and then the pattern of permanganate modifications were mapped genome-wide

ORGANISM(S): Drosophila melanogaster  

SUBMITTER: Jian Li   David Scott Gilmour  David S Gilmour 

PROVIDER: E-GEOD-46620 | ArrayExpress | 2013-07-02

SECONDARY ACCESSION(S): GSE46620PRJNA210255

REPOSITORIES: GEO, ArrayExpress

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Publications

Kinetic competition between elongation rate and binding of NELF controls promoter-proximal pausing.

Li Jian J   Liu Yingyun Y   Rhee Ho Sung HS   Ghosh Saikat Kumar B SK   Bai Lu L   Pugh B Franklin BF   Gilmour David S DS  

Molecular cell 20130601 5


Pausing of RNA polymerase II (Pol II) 20-60 bp downstream of transcription start sites is a major checkpoint during transcription in animal cells. Mechanisms that control pausing are largely unknown. We developed permanganate-ChIP-seq to evaluate the state of Pol II at promoters throughout the Drosophila genome, and a biochemical system that reconstitutes promoter-proximal pausing to define pausing mechanisms. Stable open complexes of Pol II are largely absent from the transcription start sites  ...[more]

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