DBNascent | Samples

SRR1501094 Sample ID 1443

**Data sources**
Paper identifier	Leveille2015genome
SRP accession	SRP034626
GEO accession	GSE53499
Samples	SRR1501094

**Technical details**
QC score	3
Replicate	2
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	experimental
Wildtype & Untreated?	False
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	228 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
treatment	nutlin-3 (8 microM)	-12 hr	0 hr	12 hr

**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	111,623,299
Duplication proportion	0.6827
Proportion reads mapped	0.9698
Exon/intron ratio	3.19979
Unique read proportion	0.49642

**Bidirectionals**
Total # Tfit bidirectionals	38315
# Promoter Tfit bidirectionals	14464
# Intronic Tfit bidirectionals	15140
# Intergenic Tfit bidirectionals	8239
Total # dREG bidirectionals	30293
# Promoter dREG bidirectionals	8633
# Intronic dREG bidirectionals	12379
# Intergenic dREG bidirectionals	8325
Part of Tfit master merge?	True
Part of dREG master merge?	True