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Series GSE43440 Query DataSets for GSE43440
Status Public on Jan 29, 2013
Title Coordinated regulation of synthesis and stability of RNA during the acute TNF-induced proinflammatory response
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Steady-state gene expression is a coordination of synthesis and decay of RNA through epigenetic regulation, transcription factors, miRNAs, and RNA-binding proteins. Here, we present Bru-Seq and BruChase-Seq to assess genome-wide changes to RNA synthesis and stability in human fibroblasts at homeostasis and after exposure to the proinflammatory TNF. The inflammatory response in human cells involves rapid and dramatic changes in gene expression, and the Bru-Seq and BruChase-Seq techniques revealed a coordinated and complex regulation of gene expression both at the transcriptional and posttranscriptional levels. The combinatory analysis of both RNA synthesis and stability using Bru-Seq and BruChase-Seq allows for a much deeper understanding of mechanisms of gene regulation than afforded by the analysis of steadystate total RNA and should be useful in many biological settings.
 
Overall design Analysis of the effect of TNF exposure in nascent gene expression and in transcript stability
 
Contributor(s) Paulsen MT, Veloso A, Prasad J, Bedi K, Ljungman EA, Tsan Y, Chang C, Tarrier B, Washburn JG, Lyons R, Robinson DR, Kumar-Sinha C, Wilson TE, Ljungman M
Citation(s) 23345452
Submission date Jan 11, 2013
Last update date May 15, 2019
Contact name Mats Ljungman
E-mail(s) tenbroek@med.umich.edu, bedik@umich.edu, ivenkat@umich.edu
Organization name University of Michigan
Street address NCRC, B520 Room 1346 2800 Plymouth Rd.
City Ann Arbor
State/province Michigan
ZIP/Postal code 48109-2800
Country USA
 
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (10)
GSM1062443 nf0h1
GSM1062444 nf0h2
GSM1062445 nf0h3a
Relations
BioProject PRJNA186428
SRA SRP017919

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
GSE43440_RAW.tar 9.9 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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