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

Database: dm6 Primary Table: dCP_OSC_STARRseq_macs Row Count: 3,988 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	66737	`int(10) unsigned`	range
`chromEnd`	67471	`int(10) unsigned`	range
`name`	dCP_OSC_STARRseq_macs_peak_1	`varchar(255)`	values
`score`	101	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	5.40588	`float`	range
`pValue`	11.9756	`float`	range
`qValue`	10.1135	`float`	range
`peak`	333	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	66737	67471	dCP_OSC_STARRseq_macs_peak_1	101	.	5.40588	11.9756	10.1135	333
585	chr2L	107018	108264	dCP_OSC_STARRseq_macs_peak_2	183	.	7.09866	20.3941	18.3353	575
585	chr2L	109114	110640	dCP_OSC_STARRseq_macs_peak_3	586	.	14.9272	61.2123	58.6363	999
586	chr2L	154889	155820	dCP_OSC_STARRseq_macs_peak_4	55	.	3.76953	7.22098	5.52537	330
586	chr2L	160181	162527	dCP_OSC_STARRseq_macs_peak_5a	427	.	12.4071	45.1054	42.7001	570
586	chr2L	160181	162527	dCP_OSC_STARRseq_macs_peak_5b	2447	.	39.7639	248.592	244.747	1750
586	chr2L	165389	167513	dCP_OSC_STARRseq_macs_peak_6	1302	.	29.4482	133.363	130.23	1295
586	chr2L	244081	245009	dCP_OSC_STARRseq_macs_peak_7	299	.	9.13277	32.1441	29.9027	486
586	chr2L	248710	250272	dCP_OSC_STARRseq_macs_peak_8	536	.	13.7798	56.169	53.6455	470
587	chr2L	276797	277540	dCP_OSC_STARRseq_macs_peak_9	122	.	5.53978	14.1581	12.241	410

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.