Schema for Schulz FAIRE-Seq - FAIRE-Seq of Drosophila Embryos (Schulz et al. 2015)

Database: dm6 Primary Table: zld_faire_macs Row Count: 34,959 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	315	`int(10) unsigned`	range
`chromEnd`	575	`int(10) unsigned`	range
`name`	zld_faire_macs_peak_1	`varchar(255)`	values
`score`	85	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	2.3194	`float`	range
`pValue`	10.2097	`float`	range
`qValue`	8.5394	`float`	range
`peak`	87	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	315	575	zld_faire_macs_peak_1	85	.	2.3194	10.2097	8.5394	87
585	chr2L	731	1022	zld_faire_macs_peak_2	26	.	1.6829	3.91446	2.63545	159
585	chr2L	1182	1435	zld_faire_macs_peak_3	61	.	2.0939	7.6512	6.10651	136
585	chr2L	1669	1916	zld_faire_macs_peak_4	92	.	2.48309	10.9939	9.29003	119
585	chr2L	2120	2270	zld_faire_macs_peak_5	55	.	2.09451	7.07371	5.56183	89
585	chr2L	2578	2879	zld_faire_macs_peak_6	49	.	2.09907	6.42128	4.94841	128
585	chr2L	3058	3223	zld_faire_macs_peak_7	73	.	2.26549	8.95707	7.3439	90
585	chr2L	3494	3689	zld_faire_macs_peak_8	36	.	1.84844	4.98672	3.61338	119
585	chr2L	3995	4185	zld_faire_macs_peak_9	60	.	2.14994	7.56484	6.02432	79
585	chr2L	4425	4675	zld_faire_macs_peak_10	89	.	2.38765	10.6423	8.95282	104

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

Schulz FAIRE-Seq (schulz_faire) Track Description


	Description These tracks show the results from Formaldehyde-Assisted Isolation of Regulatory Elements Sequencing (FAIRE-Seq) of 2-3 hour Drosophila embryos lacking maternal Zelda (zldM-) and of control embryos (yw). The peak calls and the log likelihood ratio evidence tracks were produced by MACS2. The datasets were obtained from the NCBI BioProject database under the accession number PRJNA275186. Credits Schulz KN, Bondra ER, Moshe A, Villalta JE, Lieb JD, Kaplan T, McKay DJ, Harrison MM. Zelda is differentially required for chromatin accessibility, transcription factor binding, and gene expression in the early Drosophila embryo. Genome Res. 2015 Nov;25(11):1715-26. 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