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

Database: dm6 Primary Table: hkCP_OSC_STARRseq_macs Row Count: 5,234 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	18067	`int(10) unsigned`	range
`chromEnd`	18864	`int(10) unsigned`	range
`name`	hkCP_OSC_STARRseq_macs_peak_1	`varchar(255)`	values
`score`	102	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	5.1915	`float`	range
`pValue`	11.8811	`float`	range
`qValue`	10.249	`float`	range
`peak`	438	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	18067	18864	hkCP_OSC_STARRseq_macs_peak_1	102	.	5.1915	11.8811	10.249	438
585	chr2L	20853	21611	hkCP_OSC_STARRseq_macs_peak_2	252	.	8.6525	27.0825	25.2346	409
585	chr2L	94607	95301	hkCP_OSC_STARRseq_macs_peak_3	100	.	4.80312	11.6818	10.0564	290
585	chr2L	101867	102881	hkCP_OSC_STARRseq_macs_peak_4	794	.	16.8268	81.7779	79.4714	508
585	chr2L	106429	107974	hkCP_OSC_STARRseq_macs_peak_5	263	.	7.65502	28.1815	26.3215	348
585	chr2L	109681	110479	hkCP_OSC_STARRseq_macs_peak_6	314	.	9.15158	33.3288	31.415	422
585	chr2L	128752	129563	hkCP_OSC_STARRseq_macs_peak_7	218	.	6.89783	23.6251	21.8219	424
586	chr2L	154675	156552	hkCP_OSC_STARRseq_macs_peak_8	1068	.	19.4653	109.383	106.895	609
586	chr2L	158727	159352	hkCP_OSC_STARRseq_macs_peak_9	90	.	4.65904	10.681	9.07434	305
586	chr2L	161221	162411	hkCP_OSC_STARRseq_macs_peak_10	1049	.	21.3398	107.421	104.944	731

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.