Schema for hkCP dCP STARR-Seq - Housekeeping and Developmental Enhancers Identified by STARR-Seq

Database: dm6 Primary Table: eEF1delta_S2_STARRseq_macs Row Count: 5,768 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	35018	`int(10) unsigned`	range
`chromEnd`	36056	`int(10) unsigned`	range
`name`	eEF1delta_S2_STARRseq_macs_...	`varchar(255)`	values
`score`	47	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	2.01763	`float`	range
`pValue`	6.26673	`float`	range
`qValue`	4.73238	`float`	range
`peak`	725	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	35018	36056	eEF1delta_S2_STARRseq_macs_peak_1	47	.	2.01763	6.26673	4.73238	725
585	chr2L	47096	47800	eEF1delta_S2_STARRseq_macs_peak_2	92	.	2.57249	10.9368	9.24707	303
585	chr2L	72546	73952	eEF1delta_S2_STARRseq_macs_peak_3	58	.	2.15333	7.38183	5.80256	553
585	chr2L	94643	95295	eEF1delta_S2_STARRseq_macs_peak_4	78	.	2.46917	9.51747	7.86789	517
585	chr2L	102026	102904	eEF1delta_S2_STARRseq_macs_peak_5	514	.	5.50739	53.8866	51.488	425
585	chr2L	106295	108404	eEF1delta_S2_STARRseq_macs_peak_6a	214	.	3.36559	23.3696	21.4177	424
585	chr2L	106295	108404	eEF1delta_S2_STARRseq_macs_peak_6b	330	.	4.02324	35.2122	33.0746	1598
585	chr2L	109107	109742	eEF1delta_S2_STARRseq_macs_peak_7	78	.	2.25999	9.4889	7.83998	304
585	chr2L	120288	121341	eEF1delta_S2_STARRseq_macs_peak_8	976	.	7.04174	100.605	97.6466	514
586	chr2L	142833	143759	eEF1delta_S2_STARRseq_macs_peak_9	418	.	4.46167	44.1472	41.8816	453

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

hkCP dCP STARR-Seq (hkCpdCpStarrSeq) Track Description

Description

These tracks show the putative housekeeping (hkCP) and developmental (dCP) enhancers identified by STARR-Seq in S2 and OSC cells. The regions that are enriched in STARR-Seq reads were identified by MACS2. The log likelihood ratio evidence tracks were also produced by MACS2.

The STARR-Seq reporters used in this study are as follows:

Reporter	Description	Reporter Type
RpS12 (hkCP)	Ribosomal protein gene 12	Housekeeping
eEF1delta	Eukaryotic translation elongation factor 1 delta	Housekeeping
NipB	Cohesin loader Nipped-B	Housekeeping
X16	Putative splicing factor x16	Housekeeping
DSCP (dCP)	Derived from the even-skipped transcription factor	Developmental
pnr	Derived from the pannier transcription factor	Developmental

References

Zabidi MA, Arnold CD, Schernhuber K, Pagani M, Rath M, Frank O, Stark A. Enhancer-core-promoter specificity separates developmental and housekeeping gene regulation. Nature. 2015 Feb 26;518(7540):556-9.

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.