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

Database: dm6 Primary Table: CLAMP_SL2_MSL2_RNAi_macs Row Count: 11,393 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	5095	`int(10) unsigned`	range
`chromEnd`	6089	`int(10) unsigned`	range
`name`	CLAMP_SL2_MSL2_RNAi_macs_pe...	`varchar(255)`	values
`score`	385	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	3.35415	`float`	range
`pValue`	40.821	`float`	range
`qValue`	38.5119	`float`	range
`peak`	208	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	5095	6089	CLAMP_SL2_MSL2_RNAi_macs_peak_1a	385	.	3.35415	40.821	38.5119	208
585	chr2L	5095	6089	CLAMP_SL2_MSL2_RNAi_macs_peak_1b	1377	.	6.3035	145.892	137.743	769
585	chr2L	6575	6748	CLAMP_SL2_MSL2_RNAi_macs_peak_2	107	.	2.13972	12.658	10.7924	85
585	chr2L	46815	47486	CLAMP_SL2_MSL2_RNAi_macs_peak_3a	62	.	1.70585	7.97846	6.23017	138
585	chr2L	46815	47486	CLAMP_SL2_MSL2_RNAi_macs_peak_3b	74	.	1.73608	9.20087	7.41668	507
585	chr2L	52605	52916	CLAMP_SL2_MSL2_RNAi_macs_peak_4a	20	.	1.50359	3.6078	2.07432	81
585	chr2L	52605	52916	CLAMP_SL2_MSL2_RNAi_macs_peak_4b	41	.	1.69635	5.82994	4.16294	268
585	chr2L	62540	62791	CLAMP_SL2_MSL2_RNAi_macs_peak_5	54	.	1.7569	7.15527	5.43486	93
585	chr2L	66748	67481	CLAMP_SL2_MSL2_RNAi_macs_peak_6a	608	.	3.11885	63.482	60.8194	190
585	chr2L	66748	67481	CLAMP_SL2_MSL2_RNAi_macs_peak_6b	495	.	3.38251	52.0513	49.5707	576

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