Schema for GAF KD Differential Regions - GAF vs. GAF_KD Differential Regions
  Database: dm6    Primary Table: GAF_KD_unique    Row Count: 53   Data last updated: 2022-10-20
fieldexampleSQL type info
chrom chr2Lvarchar(255) values
chromStart 4062876int(10) unsigned range
chromEnd 4063087int(10) unsigned range
name GAF_KD_unique_1varchar(255) values
id GAF_KD_unique_1varchar(255) values
description LLR: 4.60060longblob  

Sample Rows
 
chromchromStartchromEndnameiddescription
chr2L40628764063087GAF_KD_unique_1GAF_KD_unique_1LLR: 4.60060
chr2L1505992315060212GAF_KD_unique_2GAF_KD_unique_2LLR: 7.92547
chr2L2351280223513711GAF_KD_unique_3GAF_KD_unique_3LLR: 6.50530
chr2R15201541520376GAF_KD_unique_4GAF_KD_unique_4LLR: 4.33066
chr2R18256731826737GAF_KD_unique_5GAF_KD_unique_5LLR: 8.69431
chr2R33075613307834GAF_KD_unique_6GAF_KD_unique_6LLR: 7.65399
chr2R33119233312222GAF_KD_unique_7GAF_KD_unique_7LLR: 9.14246
chr2R63503696350682GAF_KD_unique_8GAF_KD_unique_8LLR: 9.58140
chr3L630967631179GAF_KD_unique_9GAF_KD_unique_9LLR: 4.35229
chr3L652118652688GAF_KD_unique_10GAF_KD_unique_10LLR: 4.34040

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

GAF KD Differential Regions (GAF_KD_bdgdiff) Track Description
 

Description

These tracks show the differential enrichment regions between the GAF and GAF-KD samples as identified by the bdgdiff program in MACS2.

The ChIP-Seq dataset was obtained from the Gene Expression Omnibus database at NCBI under the accession number GSE40646

Credits

Fuda NJ, Guertin MJ, Sharma S, Danko CG, Martins AL, Siepel A, Lis JT. GAGA factor maintains nucleosome-free regions and has a role in RNA polymerase II recruitment to promoters. PLoS Genet. 2015 Mar 27;11(3):e1005108.

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.