Architectural Proteins ChIP-Seq (S2) Track Settings
 
ChIP-Seq of Architectural Proteins in S2 Cells   (All ChIP Seq Tracks)

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Cp190 
Ibf1 
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pita 
ZIPIC 
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 Cp190 MACS2  Cp190 MACS2 Peaks for S2 Cells   Schema 
 
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 Cp190 Peakzilla  Cp190 Peakzilla Peaks for S2 Cells   Schema 
 
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 Cp190 logLR  Cp190 Log Likelihood Enrichment for S2 Cells   Schema 
 
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 Ibf1 MACS2  Ibf1 MACS2 Peaks for S2 Cells   Schema 
 
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 Ibf1 Peakzilla  Ibf1 Peakzilla Peaks for S2 Cells   Schema 
 
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 Ibf1 logLR  Ibf1 Log Likelihood Enrichment for S2 Cells   Schema 
 
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 Ibf2 MACS2  Ibf2 MACS2 Peaks for S2 Cells   Schema 
 
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 Ibf2 Peakzilla  Ibf2 Peakzilla Peaks for S2 Cells   Schema 
 
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 Ibf2 logLR  Ibf2 Log Likelihood Enrichment for S2 Cells   Schema 
 
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 pita MACS2  pita MACS2 Peaks for S2 Cells   Schema 
 
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 pita Peakzilla  pita Peakzilla Peaks for S2 Cells   Schema 
 
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 pita logLR  pita Log Likelihood Enrichment for S2 Cells   Schema 
 
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 ZIPIC MACS2  ZIPIC MACS2 Peaks for S2 Cells   Schema 
 
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 ZIPIC Peakzilla  ZIPIC Peakzilla Peaks for S2 Cells   Schema 
 
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 ZIPIC logLR  ZIPIC Log Likelihood Enrichment for S2 Cells   Schema 
    

Description

These tracks show the results of the ChIP-Seq analyses of architectural proteins (also known as insulators) from S2 cells. The regions that are enriched in the architectural proteins were identified by MACS2 and Peakzilla. The log likelihood ratio evidence tracks were produced by MACS2.

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

AccessionInsulatorsReference
GSE46614Cp190, Ibf1, Ibf2Cuartero S et al., EMBO J. 2014
GSE54337pita, ZIPICMaksimenko O et al., Genome Res. 2015

References

Maksimenko O, Bartkuhn M, Stakhov V, Herold M, Zolotarev N, Jox T, Buxa MK, Kirsch R, Bonchuk A, Fedotova A, Kyrchanova O, Renkawitz R, Georgiev P. Two new insulator proteins, Pita and ZIPIC, target CP190 to chromatin. Genome Res. 2015 Jan;25(1):89-99.

Cuartero S, Fresán U, Reina O, Planet E, Espinàs ML. Ibf1 and Ibf2 are novel CP190-interacting proteins required for insulator function. EMBO J. 2014 Mar 18;33(6):637-47.

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.