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

Database: dm6 Primary Table: hkCP_S2_STARRseq_macs Row Count: 4,602 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	18099	`int(10) unsigned`	range
`chromEnd`	19101	`int(10) unsigned`	range
`name`	hkCP_S2_STARRseq_macs_peak_1	`varchar(255)`	values
`score`	417	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	7.88635	`float`	range
`pValue`	43.8116	`float`	range
`qValue`	41.7714	`float`	range
`peak`	559	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	18099	19101	hkCP_S2_STARRseq_macs_peak_1	417	.	7.88635	43.8116	41.7714	559
585	chr2L	20880	21908	hkCP_S2_STARRseq_macs_peak_2	362	.	7.26375	38.2281	36.2418	486
585	chr2L	72704	74260	hkCP_S2_STARRseq_macs_peak_3a	22	.	2.10689	3.67966	2.21557	275
585	chr2L	72704	74260	hkCP_S2_STARRseq_macs_peak_3b	46	.	2.70906	6.20878	4.65893	1309
585	chr2L	94621	95232	hkCP_S2_STARRseq_macs_peak_4	55	.	2.79144	7.17159	5.59734	279
585	chr2L	101879	102918	hkCP_S2_STARRseq_macs_peak_5	852	.	11.1836	87.7053	85.2923	528
585	chr2L	106255	108432	hkCP_S2_STARRseq_macs_peak_6a	286	.	5.41003	30.5575	28.6485	480
585	chr2L	106255	108432	hkCP_S2_STARRseq_macs_peak_6b	382	.	6.08392	40.2539	38.2482	1742
585	chr2L	120290	121514	hkCP_S2_STARRseq_macs_peak_7	2482	.	22.0836	251.903	248.277	559
586	chr2L	142818	143676	hkCP_S2_STARRseq_macs_peak_8	357	.	5.78069	37.6938	35.7134	440

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.