Schema for Schor 2017 CAGE Peaks (R5) - CAGE Peaks and TSS Clusters Identified by Schor et al. 2017 (R5)

Database: dm6 Primary Table: schorCAGE Data last updated: 2018-01-08
Big Bed File: /gbdb/dm6/bbi/schorCAGE.bb
Item Count: 16,387
Format description: Browser extensible data, with extended fields for type of promoter peak

field	example	description
`chrom`	chr2L	Reference sequence chromosome or scaffold
`chromStart`	15731691	Start position in chromosome
`chromEnd`	15731913	End position in chromosome
`name`	SchorCAGE_703	Short Name of item
`score`	0	Score from 0-1000
`strand`	-	+ or -
`thickStart`	15731691	Start of where display should be thick
`thickEnd`	15731913	End of where display should be thick
`reserved`	118,42,131	Used as itemRgb as of 2004-11-22
`gene`	CycE	Gene associated with the CAGE peak
`shape`	narrow	TSS Shape
`shapeIndex`	-0.110309	Shape Index (SI)

Sample Rows

chrom	chromStart	chromEnd	name	strand	thickStart	thickEnd	reserved	gene	shape	shapeIndex
chr2L	15731691	15731913	SchorCAGE_703	-	15731691	15731913	118,42,131	CycE	narrow	-0.110309
chr2L	15750912	15751238	SchorCAGE_704	-	15750912	15751238	27,120,55	l(2)35Di	broad	-2.404897
chr2L	15752143	15752415	SchorCAGE_705	+	15752143	15752415	27,120,55	l(2)35Df	broad	-2.263963
chr2L	15762196	15762622	SchorCAGE_706	-	15762196	15762622	27,120,55	Gli	broad	-2.692058
chr2L	15762629	15762920	SchorCAGE_707	-	15762629	15762920	118,42,131	Gli	narrow	1.314907
chr2L	15764099	15764367	SchorCAGE_708	+	15764099	15764367	27,120,55	CG3793	broad	-2.211991
chr2L	15768166	15768459	SchorCAGE_709	-	15768166	15768459	27,120,55	wek	broad	-2.857713
chr2L	15771020	15771261	SchorCAGE_710	-	15771020	15771261	27,120,55	Ku80	broad	-2.698115
chr2L	15772611	15772765	SchorCAGE_711	-	15772611	15772765	118,42,131	CG31826	narrow	0.399525
chr2L	15854191	15854370	SchorCAGE_713	+	15854191	15854370	118,42,131	Tektin-A	narrow	0.197289

Schor 2017 CAGE Peaks (R5) (schorCAGE) Track Description

Description

This track shows the CAGE TSS clusters identified by Schor IE et al., 2017. The TSS clusters were generated based on the analysis of CAGE datasets for 81 Drosophila lines.

Methods

The CAGE TSS clusters dataset was obtained from the Furlong lab web site, and then lifted from the release 5 to the release 6 assembly.

Promoter Type	Color
Narrow
Broad

References

Schor IE, Degner JF, Harnett D, Cannavò E, Casale FP, Shim H, Garfield DA, Birney E, Stephens M, Stegle O, Furlong EE. Promoter shape varies across populations and affects promoter evolution and expression noise. Nat Genet. 2017 Apr;49(4):550-558.