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

Database: DsimGB2 Primary Table: GSE102439_eyediscs_macs Row Count: 27,430 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	CM002910	`varchar(255)`	values
`chromStart`	10673	`int(10) unsigned`	range
`chromEnd`	11019	`int(10) unsigned`	range
`name`	GSE102439_DsimGB2_atac_macs...	`varchar(255)`	values
`score`	397	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	6.1503	`float`	range
`pValue`	41.908	`float`	range
`qValue`	39.7729	`float`	range
`peak`	168	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	CM002910	10673	11019	GSE102439_DsimGB2_atac_macs_peak_1	397	.	6.1503	41.908	39.7729	168
585	CM002910	11891	12851	GSE102439_DsimGB2_atac_macs_peak_2a	137	.	3.62184	15.2923	13.7889	276
585	CM002910	11891	12851	GSE102439_DsimGB2_atac_macs_peak_2b	261	.	4.92024	27.9268	26.1115	787
585	CM002910	27286	28049	GSE102439_DsimGB2_atac_macs_peak_3a	26	.	1.98176	3.70924	2.62179	93
585	CM002910	27286	28049	GSE102439_DsimGB2_atac_macs_peak_3b	33	.	2.11844	4.42854	3.30206	462
585	CM002910	30861	31187	GSE102439_DsimGB2_atac_macs_peak_4	126	.	3.48517	14.1156	12.6444	140
585	CM002910	39054	39342	GSE102439_DsimGB2_atac_macs_peak_5	149	.	3.75851	16.5009	14.9654	144
585	CM002910	41835	42046	GSE102439_DsimGB2_atac_macs_peak_6	96	.	3.05195	11.0701	9.69139	101
585	CM002910	42721	42962	GSE102439_DsimGB2_atac_macs_peak_7	67	.	2.68817	8.06713	6.78939	125
585	CM002910	45834	46253	GSE102439_DsimGB2_atac_macs_peak_8	432	.	6.25	45.5088	43.2932	209

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. simulans 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