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

Database: dm6 Primary Table: dCP_S2_STARRseq_macs Row Count: 4,435 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	34932	`int(10) unsigned`	range
`chromEnd`	35636	`int(10) unsigned`	range
`name`	dCP_S2_STARRseq_macs_peak_1	`varchar(255)`	values
`score`	66	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	3.49044	`float`	range
`pValue`	8.47824	`float`	range
`qValue`	6.65388	`float`	range
`peak`	252	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	34932	35636	dCP_S2_STARRseq_macs_peak_1	66	.	3.49044	8.47824	6.65388	252
585	chr2L	47044	48042	dCP_S2_STARRseq_macs_peak_2	592	.	13.7631	61.9493	59.2652	515
585	chr2L	93439	94100	dCP_S2_STARRseq_macs_peak_3	22	.	2.55891	3.77299	2.29873	212
585	chr2L	107770	108362	dCP_S2_STARRseq_macs_peak_4	79	.	3.69071	9.81722	7.93529	293
585	chr2L	109055	109989	dCP_S2_STARRseq_macs_peak_5	479	.	10.9629	50.5574	47.9833	408
585	chr2L	120252	121564	dCP_S2_STARRseq_macs_peak_6	8332	.	76.1276	838.937	833.227	652
586	chr2L	158439	159245	dCP_S2_STARRseq_macs_peak_7	36	.	2.98543	5.2325	3.60895	491
586	chr2L	160600	162471	dCP_S2_STARRseq_macs_peak_8a	116	.	4.25954	13.6077	11.602	303
586	chr2L	160600	162471	dCP_S2_STARRseq_macs_peak_8b	788	.	13.3523	81.7035	78.8485	1353
586	chr2L	165101	167362	dCP_S2_STARRseq_macs_peak_9a	120	.	5.19997	14.0693	12.0531	367

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.