Schema for FStitch Nascent Transcripts - Nascent RNA Transcripts Predicted by FStitch

Database: dm6 Primary Table: GSE77607_S2_FStitch_minus Row Count: 9,173 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	5126	`int(10) unsigned`	range
`chromEnd`	6095	`int(10) unsigned`	range
`name`	FStitch_0	`varchar(255)`	values
`score`	985	`int(10) unsigned`	range
`strand`	-	`char(1)`	values

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand
585	chr2L	5126	6095	FStitch_0	985	-
585	chr2L	6566	6860	FStitch_1	591	-
585	chr2L	7327	16353	FStitch_2	981	-
585	chr2L	16358	17191	FStitch_3	779	-
585	chr2L	17715	18324	FStitch_4	691	-
585	chr2L	18327	20227	FStitch_5	916	-
585	chr2L	69729	71048	FStitch_6	734	-
585	chr2L	71392	73914	FStitch_7	955	-
585	chr2L	83272	84803	FStitch_8	931	-
585	chr2L	87037	87413	FStitch_9	668	-

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

FStitch Nascent Transcripts (FStitchTranscripts) Track Description


	Description These tracks show the nascent transcripts predicted by FStitch based on Precision Run-On and sequencing (PRO-seq) datasets for Drosophila S2 cells. The S2_NHS_PRO_seq dataset was retrieved from the Gene Expression Omnibus database at NCBI under the accession number GSE77607. Credits Duarte FM, Fuda NJ, Mahat DB, Core LJ, Guertin MJ, Lis JT. Transcription factors GAF and HSF act at distinct regulatory steps to modulate stress-induced gene activation. Genes Dev. 2016 Aug 1;30(15):1731-46. Azofeifa J, Allen M, Lladser M, Dowell R. An annotation agnostic algorithm for detecting nascent RNA transcripts in GRO-seq. IEEE/ACM Trans Comput Biol Bioinform. 2016 Jan 26.

Description