Schema for Architectural Proteins ChIP-Seq (S2) - ChIP-Seq of Architectural Proteins in S2 Cells
  Database: dm6    Primary Table: GSE46614_CP190_macs    Row Count: 7,513   Data last updated: 2020-08-21
fieldexampleSQL type info
bin 585smallint(5) unsigned range
chrom chr2Lvarchar(255) values
chromStart 16620int(10) unsigned range
chromEnd 17062int(10) unsigned range
name GSE46614_CP190_macs_peak_1varchar(255) values
score 340int(10) unsigned range
strand .char(1) values
signalValue 8.0333float range
pValue 36.0311float range
qValue 34.0304float range
peak 172int(11) range

Sample Rows
 
binchromchromStartchromEndnamescorestrandsignalValuepValueqValuepeak
585chr2L1662017062GSE46614_CP190_macs_peak_1340.8.033336.031134.0304172
585chr2L1831619150GSE46614_CP190_macs_peak_22159.27.0454218.513215.907366
585chr2L1940619987GSE46614_CP190_macs_peak_3822.13.924484.468182.2385212
585chr2L2130521863GSE46614_CP190_macs_peak_4774.13.388879.667577.4556193
585chr2L3532935942GSE46614_CP190_macs_peak_53156.31.2509318.562315.657326
585chr2L4190142487GSE46614_CP190_macs_peak_6116.4.4003613.463711.6719239
585chr2L4715947613GSE46614_CP190_macs_peak_71511.14.8808153.635151.198230
585chr2L5245252702GSE46614_CP190_macs_peak_8212.4.6605823.166321.2662146
585chr2L6473065152GSE46614_CP190_macs_peak_9283.7.2299730.333628.3729183
585chr2L6526566106GSE46614_CP190_macs_peak_10a90.4.0098510.78729.03623133

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

Architectural Proteins ChIP-Seq (S2) (insulatorsS2ChIPSeq) Track Description
 

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.