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SRX360389: GSM1240212: IP flag PGC-1alpha rep.2; Mus musculus; ChIP-Seq
1 ILLUMINA (Illumina Genome Analyzer IIx) run: 46.5M spots, 1.8G bases, 1Gb downloads

Submitted by: Gene Expression Omnibus (GEO)
Study: Transcriptional network analysis in muscle reveals AP-1 as a partner of PGC-1a in the regulation of the hypoxic gene program [ChIP-Seq]
show Abstracthide Abstract
Skeletal muscle tissue shows an extraordinary cellular plasticity, but the underlying molecular mechanisms are still poorly understood. Here we use a combination of experimental and computational approaches to unravel the complex transcriptional network of muscle cell plasticity centered on the peroxisome proliferator-activated receptor ? coactivator 1a (PGC-1a), a regulatory nexus in endurance training adaptation. By integrating data on genome-wide binding of PGC-1a and gene expression upon PGC-1a over-expression with comprehensive computational prediction of transcription factor binding sites (TFBSs), we uncover a hitherto underestimated number of transcription factor partners involved in mediating PGC-1a action. In particular, principal component analysis of TFBSs at PGC-1a binding regions predicts that, besides the well-known role of the estrogen-related receptor a (ERRa), the activator protein-1 complex (AP-1) plays a major role in regulating the PGC-1a-controlled gene program of hypoxia response. Our findings thus reveal the complex transcriptional network of muscle cell plasticity controlled by PGC-1a. Overall design: We performed ChIP-Seq experiments to identify all DNA recruitment sites for PGC-1alpha in C2C12 cells on genome-wide scale. The experiment was performed in duplicate and the Whole Cell Extract (WCE; =input DNA) was used as background condition.
Sample: IP flag PGC-1alpha rep.2
SAMN02364117 • SRS487831 • All experiments • All runs
Organism: Mus musculus
Library:
Instrument: Illumina Genome Analyzer IIx
Strategy: ChIP-Seq
Source: GENOMIC
Selection: ChIP
Layout: SINGLE
Construction protocol: Starting with approximately 1x10^8 C2C12 cells (crosslinked with formaldehyde), the chromatin immunoprecipitation was performed according to the Agilent Mammalian ChIP-on-chip Protocol version 10.0 using magnetic beads (Dynabeads® Protein G, Invitrogen), which were previously coated with monoclonal anti-flag antibodies (Monoclonal ANTI-FLAG® M2 Antibody, Sigma). ChIP DNA libraries were prepared for sequencing using standard Illumina protocols
Experiment attributes:
GEO Accession: GSM1240212
Links:
External link:
Runs: 1 run, 46.5M spots, 1.8G bases, 1Gb
Run# of Spots# of BasesSizePublished
SRR100292446,527,2681.8G1Gb2014-06-16

ID:
509594

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