DBNascent | Samples

SRR1501091 Sample ID 1440

**Data sources**
Paper identifier	Leveille2015genome
SRP accession	SRP034626
GEO accession	GSE53499
Samples	SRR1501091

**Technical details**
QC score	3
Replicate	1
Protocol	GRO-seq
Library prep	ligation
Spike-in	None
Single/Paired end	single
Raw strandedness	forward
Reverse complemented?	False
Mapped strandedness	forward
Timecourse	False
Control/Experimental	control
Wildtype & Untreated?	True
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	213 Mb
Stranded gene read counts	TXT file	1 Mb
Unstranded bidirectional read counts	TXT file	21 Mb
Tfit bidirectional regions	BED file	3 Mb
dREG bidirectional regions	BED file	1 Mb
All data files	ZIP archive

**Cellular details**
Organism	H. sapiens
Sample type	cell line
Cell type	MCF7
Clone/Individual
Strain
Genotype
Construct

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
no treatment		None	None	None

**Extended notes**
Pipeline info and software versions
Sample notes	Paper cites Wang2011 (circularization) but GEO says Core 2008 and describes ligation.
Analysis notes	Ran qc redo nextflow

**Sample metrics**
Sample QC score	3
Sample NRO score	2
Raw read length	51
Read depth after trimming	144,145,553
Duplication proportion	0.78181
Proportion reads mapped	0.9713
Exon/intron ratio	3.23915
Unique read proportion	0.43669

**Bidirectionals**
Total # Tfit bidirectionals	34444
# Promoter Tfit bidirectionals	14491
# Intronic Tfit bidirectionals	13260
# Intergenic Tfit bidirectionals	6236
Total # dREG bidirectionals	26397
# Promoter dREG bidirectionals	8280
# Intronic dREG bidirectionals	10456
# Intergenic dREG bidirectionals	6795
Part of Tfit master merge?	True
Part of dREG master merge?	True