Schema for GAF KD Differential Regions - GAF vs. GAF

Schema for GAF KD Differential Regions - GAF vs. GAF_KD Differential Regions

Database: dm6 Primary Table: GAF_GAF_KD_common Row Count: 523 Data last updated: 2022-10-20

field	example	SQL type	info
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	490400	`int(10) unsigned`	range
`chromEnd`	490866	`int(10) unsigned`	range
`name`	common_1	`varchar(255)`	values
`id`	common_1	`varchar(255)`	values
`description`	LLR: 0.84559	`longblob`

Sample Rows

chrom	chromStart	chromEnd	name	id	description
chr2L	490400	490866	common_1	common_1	LLR: 0.84559
chr2L	510506	510769	common_2	common_2	LLR: 1.16903
chr2L	518142	518358	common_3	common_3	LLR: 2.66095
chr2L	520960	521411	common_4	common_4	LLR: 1.43084
chr2L	521964	522294	common_5	common_5	LLR: 0.82929
chr2L	2296375	2296599	common_6	common_6	LLR: 0.04646
chr2L	2774853	2775089	common_7	common_7	LLR: 0.28449
chr2L	2778313	2778524	common_8	common_8	LLR: 0.38892
chr2L	3204163	3204365	common_9	common_9	LLR: 0.63800
chr2L	3209733	3209986	common_10	common_10	LLR: 0.94529

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.

Description