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Series GSE24114 Query DataSets for GSE24114
Status Public on Aug 17, 2011
Title Regulation of Mammalian Cell Growth and Survival By an RNA Polymerase II-Pausing Factor (Gene expression)
Organism Mus musculus
Experiment type Expression profiling by array
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 Immortalized mouse embryonic fibroblasts derived from a Nelf-b flox/- embryo were infected with control or Cre-epxressing retrovirus. Gene expression profile of control and knockout MEF at 7 days after virus infection were compared by using Illumina's mouse whole-genome gene expression BeadChIPs. There are two replicates for both control and knockout MEF samples.
Contributor(s) Li R, Sun J
Citation(s) 21865163
Submission date Sep 13, 2010
Last update date Jun 14, 2018
Contact name Jianlong Sun
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)
GPL6885 Illumina MouseRef-8 v2.0 expression beadchip
Samples (4)
GSM593400 MEF control rep1
GSM593401 MEF control rep2
GSM593402 MEF Nelf-b KO rep1
This SubSeries is part of SuperSeries:
GSE24180 Regulation of Mammalian Cell Growth and Survival By an RNA Polymerase II-Pausing Factor
BioProject PRJNA133697

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
GSE24114_RAW.tar 3.1 Mb (http)(custom) TAR
GSE24114_non-normalized.txt.gz 1.3 Mb (ftp)(http) TXT
Raw data are available on Series record
Processed data included within Sample table

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