Schema for modENCODE PolII ChIP-Seq - modENCODE RNA Polymerase II ChIP-Seq

Database: dm6 Primary Table: L2_PolII_macs Row Count: 132 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	129027	`int(10) unsigned`	range
`chromEnd`	129275	`int(10) unsigned`	range
`name`	dm6_L2_PolII_peak_1	`varchar(255)`	values
`score`	36	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	3.50669	`float`	range
`pValue`	7.10722	`float`	range
`qValue`	3.62031	`float`	range
`peak`	110	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	129027	129275	dm6_L2_PolII_peak_1	36	.	3.50669	7.10722	3.62031	110
588	chr2L	479308	479660	dm6_L2_PolII_peak_2	54	.	3.5167	9.26957	5.47889	146
591	chr2L	870783	871026	dm6_L2_PolII_peak_3	60	.	4.34906	9.94952	6.04448	115
600	chr2L	1987549	1987767	dm6_L2_PolII_peak_4	53	.	4.00764	9.11214	5.33721	94
606	chr2L	2753148	2753417	dm6_L2_PolII_peak_5	64	.	3.50722	10.4269	6.44049	143
613	chr2L	3771747	3771954	dm6_L2_PolII_peak_6a	32	.	3.6066	6.61942	3.21161	94
613	chr2L	3771747	3771954	dm6_L2_PolII_peak_6b	21	.	2.86276	5.29997	2.16435	136
623	chr2L	5093338	5093542	dm6_L2_PolII_peak_7	87	.	5.38701	13.0488	8.72971	111
630	chr2L	5980745	5980959	dm6_L2_PolII_peak_8	74	.	4.29413	11.6163	7.47169	106
630	chr2L	5986456	5986683	dm6_L2_PolII_peak_9	53	.	4.00764	9.11214	5.33721	101

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

modENCODE PolII ChIP-Seq (modENCODE_polII_chipseq) Track Description


	Description These tracks show the regions in the genome that are significantly enriched in RNA Polymerase II ChIP-Seq reads at different developmental stages 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 ChIP-Seq data were produced as part of the modENCODE project and were obtained from the NCBI Sequence Reads Archive under the accession number SRP001424. Credits Ho JW et al. ChIP-chip versus ChIP-seq: lessons for experimental design and data analysis. BMC Genomics. 2011 Feb 28;12:134. Zhang Y et al. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 2008;9(9):R137.

Description