Subtracks⇓  Description⇓  Heat Shock Proteins ChIP-Seq (S2) Track Settings
 
ChIP-Seq of Heat Shock Proteins in S2 Cells   (All ChIP Seq Tracks)

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 HSF NHS IDR  HSF Non-Heat Shock IDR Peaks   Schema 
 
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 HSF 20HS IDR  HSF 20-Minute Heat Shock IDR Peaks   Schema 
 
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 HSF 20HS Peakzilla  HSF 20-Minute Heat Shock Peakzilla Peaks   Schema 
 
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 HSF 20HS logLR  HSF 20-Minute Heat Shock Log Likelihood Enrichment   Schema 
 
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 HSF_KD NHS IDR  HSF RNAi Non-Heat Shock IDR Peaks   Schema 
 
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 HSF_KD NHS logLR  HSF RNAi Non-Heat Shock Log Likelihood Enrichment   Schema 
 
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 HSF_KD 20HS IDR  HSF RNAi 20-Minute Heat Shock IDR Peaks   Schema 
 
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 HSF_KD 20HS MACS2  HSF RNAi 20-Minute Heat Shock MACS2 Peaks   Schema 
 
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Description

These tracks show the results of the ChIP-Seq analyses of heat shock proteins from S2 cells. The regions that are enriched in the heat shock proteins were identified by MACS2 and Peakzilla. The log likelihood ratio evidence tracks were produced by MACS2. The Irreproducible Discovery Rate (IDR) peak calls were produced by the idr program using a global IDR threshold of 0.05.

The ChIP-Seq datasets were obtained from the Gene Expression Omnibus database at NCBI under the following accession numbers:

AccessionProteinsReference
GSE31226Hsp90Sawarkar R et al., Cell. 2012
GSE19025HSF, HSF RNAi KnockdownGuertin MJ et al., PLoS Genet. 2010

References

Sawarkar R, Sievers C, Paro R. Hsp90 globally targets paused RNA polymerase to regulate gene expression in response to environmental stimuli. Cell. 2012 May 11;149(4):807-18.

Guertin MJ, Lis JT. Chromatin landscape dictates HSF binding to target DNA elements. PLoS Genet. 2010 Sep 9;6(9):e1001114.

Bardet AF, Steinmann J, Bafna S, Knoblich JA, Zeitlinger J, Stark A. Identification of transcription factor binding sites from ChIP-seq data at high resolution. Bioinformatics. 2013 Nov 1;29(21):2705-13.

Zhang Y, Liu T, Meyer CA, Eeckhoute J, Johnson DS, Bernstein BE, Nusbaum C, Myers RM, Brown M, Li W, Liu XS. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 2008;9(9):R137.

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