DBNascent | Samples

SRR1519037 Sample ID 828

**Data sources**
Paper identifier	Franco2015tnfalpha
SRP accession	SRP044608
GEO accession	GSE59531
Samples	SRR1519037

**Technical details**
QC score	2
Replicate	3
Protocol	GRO-seq
Library prep	circularization
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	80 Mb
Stranded gene read counts	TXT file	1 Mb
Unstranded bidirectional read counts	TXT file	21 Mb
Tfit bidirectional regions	BED file	2 Mb
dREG bidirectional regions	BED file	776 Kb
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	17-beta-estradiol (100 nM)	-40 min	0 min	40 min

**Extended notes**
Pipeline info and software versions
Sample notes
Analysis notes	Requires "qin=33" flag for bbduk - issue with recognizing phred encoding; Ran qc redo nextflow

**Sample metrics**
Sample QC score	2
Sample NRO score	3
Raw read length	50
Read depth after trimming	19,869,677
Duplication proportion	0.41488
Proportion reads mapped	0.8824
Exon/intron ratio	4.36706
Unique read proportion	0.64991

**Bidirectionals**
Total # Tfit bidirectionals	21306
# Promoter Tfit bidirectionals	2112
# Intronic Tfit bidirectionals	14691
# Intergenic Tfit bidirectionals	2181
Total # dREG bidirectionals	18109
# Promoter dREG bidirectionals	1619
# Intronic dREG bidirectionals	12608
# Intergenic dREG bidirectionals	2290
Part of Tfit master merge?	True
Part of dREG master merge?	True