DBNascent | Samples

SRR1930091 Sample ID 2346

**Data sources**
Paper identifier	Stender2017structural
SRP accession	SRP056552
GEO accession	GSE67295
Samples	SRR1930091

**Technical details**
QC score	4
Replicate	2
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	25 Mb
Stranded gene read counts	TXT file	1 Mb
Unstranded bidirectional read counts	TXT file	21 Mb
Tfit bidirectional regions	BED file	382 Kb
dREG bidirectional regions	BED file	92 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	TNF-alpha	-30 min	0 min	30 min

**Extended notes**
Pipeline info and software versions
Sample notes	not clear on whether vehicle is DMSO or ethanol for this experiment, doesn't explicitly say treatment concentrations for GRO-seq exps
Analysis notes	Ran qc redo nextflow

**Sample metrics**
Sample QC score	4
Sample NRO score	2
Raw read length	51
Read depth after trimming	8,798,878
Duplication proportion	0.64055
Proportion reads mapped	0.7428
Exon/intron ratio	3.68047
Unique read proportion	0.3125

**Bidirectionals**
Total # Tfit bidirectionals	4358
# Promoter Tfit bidirectionals	1806
# Intronic Tfit bidirectionals	1703
# Intergenic Tfit bidirectionals	451
Total # dREG bidirectionals	2126
# Promoter dREG bidirectionals	1258
# Intronic dREG bidirectionals	546
# Intergenic dREG bidirectionals	335
Part of Tfit master merge?	True
Part of dREG master merge?	True