Schema for Eye Discs ATAC-Seq - ATAC-Seq of D. yakuba Eye Discs

Database: DyakCAF1 Primary Table: GSE102439_eyediscs_macs Row Count: 26,735 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	3324	`int(10) unsigned`	range
`chromEnd`	3668	`int(10) unsigned`	range
`name`	GSE102439_DyakCAF1_atac_mac...	`varchar(255)`	values
`score`	196	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	4.28956	`float`	range
`pValue`	21.5503	`float`	range
`qValue`	19.6828	`float`	range
`peak`	151	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	3324	3668	GSE102439_DyakCAF1_atac_macs_peak_1	196	.	4.28956	21.5503	19.6828	151
585	chr2L	15406	15995	GSE102439_DyakCAF1_atac_macs_peak_2a	159	.	3.88103	17.6664	15.9096	248
585	chr2L	15406	15995	GSE102439_DyakCAF1_atac_macs_peak_2b	38	.	2.24691	5.16624	3.86619	562
585	chr2L	16054	16294	GSE102439_DyakCAF1_atac_macs_peak_3	135	.	3.60868	15.225	13.5408	133
585	chr2L	16402	16693	GSE102439_DyakCAF1_atac_macs_peak_4	230	.	4.63001	24.9744	23.013	130
585	chr2L	27386	27588	GSE102439_DyakCAF1_atac_macs_peak_5	34	.	2.17883	4.77574	3.49749	154
585	chr2L	29443	29988	GSE102439_DyakCAF1_atac_macs_peak_6	27	.	2.04265	4.03321	2.79992	391
585	chr2L	45372	45622	GSE102439_DyakCAF1_atac_macs_peak_7	57	.	2.37581	7.10732	5.716	127
585	chr2L	47574	47964	GSE102439_DyakCAF1_atac_macs_peak_8	127	.	3.12185	14.4518	12.7939	148
585	chr2L	48661	49149	GSE102439_DyakCAF1_atac_macs_peak_9	734	.	7.32673	76.7575	73.4339	223

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

Eye Discs ATAC-Seq (GSE102439_atac_eyediscs) Track Description


	Description These tracks show the results from Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq) of D. yakuba eye-antennal discs from 3rd instar larvae. The peak calls and the log likelihood ratio evidence tracks were produced by MACS2. The Irreproducible Discovery Rate (IDR) peak calls were produced by the idr program using a global IDR threshold of 0.05. The datasets were obtained from the NCBI BioProject database under the accession number PRJNA397749. References Jacobs J, Atkins M, Davie K, Imrichova H, Romanelli L, Christiaens V, Hulselmans G, Potier D, Wouters J, Taskiran II, Paciello G, González-Blas CB, Koldere D, Aibar S, Halder G, Aerts S. The transcription factor Grainy head primes epithelial enhancers for spatiotemporal activation by displacing nucleosomes. Nat Genet. 2018 Jul;50(7):1011-1020. 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