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

Database: dm6 Primary Table: yw_faire_macs Row Count: 26,645 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	18494	`int(10) unsigned`	range
`chromEnd`	18650	`int(10) unsigned`	range
`name`	yw_faire_macs_peak_1	`varchar(255)`	values
`score`	192	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	3.07719	`float`	range
`pValue`	22.0541	`float`	range
`qValue`	19.2676	`float`	range
`peak`	73	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	18494	18650	yw_faire_macs_peak_1	192	.	3.07719	22.0541	19.2676	73
585	chr2L	21299	21439	yw_faire_macs_peak_2	141	.	2.77611	16.5513	14.1207	59
585	chr2L	26495	26620	yw_faire_macs_peak_3	44	.	1.9692	6.19187	4.4993	44
585	chr2L	27086	27418	yw_faire_macs_peak_4	298	.	3.75983	33.3019	29.8578	111
585	chr2L	28037	28199	yw_faire_macs_peak_5	116	.	2.34168	13.8345	11.6038	80
585	chr2L	28699	29033	yw_faire_macs_peak_6	239	.	3.63641	27.0229	23.9466	104
585	chr2L	33963	34237	yw_faire_macs_peak_7	99	.	2.54452	12.0409	9.92507	216
585	chr2L	35553	35866	yw_faire_macs_peak_8a	50	.	1.97824	6.76204	5.01906	66
585	chr2L	35553	35866	yw_faire_macs_peak_8b	165	.	3.08251	19.1467	16.547	232
585	chr2L	47633	47778	yw_faire_macs_peak_9	39	.	1.81799	5.52712	3.901	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