DBNascent | Samples

SRR1342250 Sample ID 886

**Data sources**
Paper identifier	Gardini2014integrator
SRP accession	SRP015419
GEO accession	GSE40632
Samples	SRR1342250

**Technical details**
QC score	3
Replicate	1
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	control
Wildtype & Untreated?	False
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	100 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	943 Kb
All data files	ZIP archive

**Cellular details**
Organism	H. sapiens
Sample type	cell line
Cell type	HeLa
Clone/Individual
Strain
Genotype
Construct	dox-inducible shRNA Ints11

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	EGF (100 ng/mL)	-30 min	0 min	30 min
treatment	serum starvation (0.5% FBS)	-24 hr	0 hr	1 day

**Extended notes**
Pipeline info and software versions
Sample notes	Treatment times don't match between GEO and paper - used paper
Analysis notes	Ran qc redo nextflow

**Sample metrics**
Sample QC score	3
Sample NRO score	1
Raw read length	21
Read depth after trimming	58,090,929
Duplication proportion	0.71879
Proportion reads mapped	0.8107
Exon/intron ratio	2.77317
Unique read proportion	0.56325

**Bidirectionals**
Total # Tfit bidirectionals	27316
# Promoter Tfit bidirectionals	9364
# Intronic Tfit bidirectionals	12436
# Intergenic Tfit bidirectionals	4820
Total # dREG bidirectionals	21710
# Promoter dREG bidirectionals	7574
# Intronic dREG bidirectionals	9762
# Intergenic dREG bidirectionals	4314
Part of Tfit master merge?	True
Part of dREG master merge?	True