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Series GSE24113 Query DataSets for GSE24113
Status Public on Aug 17, 2011
Title Regulation of Mammalian Cell Growth and Survival By an RNA Polymerase II-Pausing Factor (ChIP-seq)
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Many mammalian genes are occupied by paused RNA polymerase II (pol II) at promoter-proximal regions on both sides of transcription start sites (TSSs). However, the consequences of pol II pausing on gene expression and cell biology are not fully understood. Here we report that genetic ablation of the b subunit of mouse negative elongation factor (Nelf-b), a key pol II-pausing factor, results in slower progression at multiple cell cycle stages and increased apoptosis. Consistently, a whole-genome analysis indicates that growth and cell death-related genes are highly enriched among the direct target genes of Nelf-b. In particular, Nelf-b deletion increases pol II density in the promoter-distal region of stress response genes and their overall expression levels in the absence of any external stress signals. In addition, our work also reveals a previously unappreciated role of Nelf-b role in curbing TSS-upstream transcription of many mammalian genes. We suggest that Nelf-mediated pol II pausing balances the cellular needs for growth/survival and stress response by preventing excessive basal transcription of stress-induced genes.
 
Overall design Examination of Nelf-b bindings sites on chromosomes in mouse embryonic fibroblasts
 
Contributor(s) Li R, Sun J
Citation(s) 21865163
Submission date Sep 13, 2010
Last update date May 15, 2019
Contact name Jianlong Sun
E-mail(s) jianlongs@gmail.com
Phone 210-273-4879
Organization name Boston Children's Hospital
Department Hematology/Oncology
Lab Fernando Camargo
Street address 1 Blackfan Street
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platforms (1)
GPL9250 Illumina Genome Analyzer II (Mus musculus)
Samples (2)
GSM593398 Nelf-b_ChIPSeq
GSM593399 Input_ChIPSeq
This SubSeries is part of SuperSeries:
GSE24180 Regulation of Mammalian Cell Growth and Survival By an RNA Polymerase II-Pausing Factor
Relations
SRA SRP003504
BioProject PRJNA133695

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE24113_RAW.tar 290.0 Kb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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