DBNascent | Samples

SRR1342253 Sample ID 889

**Data sources**
Paper identifier	Gardini2014integrator
SRP	SRP015419
Samples	SRR1342253

**Technical details**
QC score	3
Replicate	2
Protocol	GRO-seq
Library prep	circularization
Spike-in	None
Single/Paired end	single
Timecourse	False
Control/Experimental	experimental
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	105 Mb
Stranded gene read counts	TXT file	1 Mb
Unstranded bidirectional read counts	TXT file	21 Mb
Tfit bidirectional regions	BED file	4 Mb
dREG bidirectional regions	BED file	1 Mb
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	doxycycline (1 microg/mL)	-96 hr	0 hr	4 day
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	2
Raw read length	50
Read depth after trimming	71,256,583
Duplication proportion	0.78388
Proportion reads mapped	0.8716
Exon/intron ratio	4.08512
Unique read proportion	0.38079

**Bidirectionals**
Total # Tfit bidirectionals	44019
# Promoter Tfit bidirectionals	14569
# Intronic Tfit bidirectionals	18326
# Intergenic Tfit bidirectionals	9971
Total # dREG bidirectionals	27014
# Promoter dREG bidirectionals	9124
# Intronic dREG bidirectionals	11298
# Intergenic dREG bidirectionals	6547
Part of Tfit master merge?	True
Part of dREG master merge?	True