Schema for CLAMP ChIP-Seq - ChIP-Seq for Chromatin-linked Adapter for MSL Proteins (CLAMP)

Database: dm6 Primary Table: CLAMP_Kc_macs Row Count: 14,851 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	66404	`int(10) unsigned`	range
`chromEnd`	66574	`int(10) unsigned`	range
`name`	CLAMP_Kc_macs_peak_1	`varchar(255)`	values
`score`	150	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	2.32894	`float`	range
`pValue`	16.7187	`float`	range
`qValue`	15.0232	`float`	range
`peak`	81	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	66404	66574	CLAMP_Kc_macs_peak_1	150	.	2.32894	16.7187	15.0232	81
585	chr2L	66718	67479	CLAMP_Kc_macs_peak_2a	1203	.	5.48183	124.445	120.388	226
585	chr2L	66718	67479	CLAMP_Kc_macs_peak_2b	943	.	4.99324	97.3586	94.3358	596
585	chr2L	72299	72879	CLAMP_Kc_macs_peak_3	979	.	4.34624	101.118	97.973	247
585	chr2L	72959	73475	CLAMP_Kc_macs_peak_4	645	.	3.26308	66.8397	64.5461	201
585	chr2L	102222	102422	CLAMP_Kc_macs_peak_5	201	.	2.38598	21.9455	20.1837	97
585	chr2L	107819	108350	CLAMP_Kc_macs_peak_6	1070	.	4.67431	110.53	107.05	229
585	chr2L	109126	109438	CLAMP_Kc_macs_peak_7	209	.	2.18444	22.6873	20.917	187
585	chr2L	120460	121191	CLAMP_Kc_macs_peak_8	411	.	2.97374	43.1602	41.1711	211
585	chr2L	128297	129603	CLAMP_Kc_macs_peak_9a	594	.	2.99039	61.7062	59.4915	424

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

CLAMP ChIP-Seq (clamp_chipseq) Track Description


	Description These tracks show the regions in the D. melanogaster genome that are significantly enriched in Chromatin-linked Adapter for MSL Proteins (CLAMP) as determined by MACS2. The signal tracks correspond to the log likelihood enrichment ratios of the treatment versus the DNA input sample as determined by the `bdgcmp` program in MACS2. The Irreproducible Discovery Rate (IDR) peak calls were produced by the idr program using a global IDR threshold of 0.05. The CLAMP ChIP-Seq datasets were obtained from the NCBI Gene Expression Omnibus database under the accession number GSE39271. References Soruco MM, Chery J, Bishop EP, Siggers T, Tolstorukov MY, Leydon AR, Sugden AU, Goebel K, Feng J, Xia P, Vedenko A, Bulyk ML, Park PJ, Larschan E. The CLAMP protein links the MSL complex to the X chromosome during Drosophila dosage compensation. Genes Dev. 2013 Jul 15;27(14):1551-6. 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. doi: 10.1186/gb-2008-9-9-r137. Epub 2008 Sep 17.

Description