DBNascent | Samples

SRR1342252 Sample ID 888

**Data sources**
Paper identifier	Gardini2014integrator
SRP accession	SRP015419
GEO accession	GSE40632
Samples	SRR1342252

**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	control
Wildtype & Untreated?	False
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	86 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	854 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	4
Sample NRO score	2
Raw read length	50
Read depth after trimming	113,605,467
Duplication proportion	0.89132
Proportion reads mapped	0.8946
Exon/intron ratio	3.85775
Unique read proportion	0.19659

**Bidirectionals**
Total # Tfit bidirectionals	28719
# Promoter Tfit bidirectionals	10058
# Intronic Tfit bidirectionals	12288
# Intergenic Tfit bidirectionals	5110
Total # dREG bidirectionals	19704
# Promoter dREG bidirectionals	8057
# Intronic dREG bidirectionals	7825
# Intergenic dREG bidirectionals	3787
Part of Tfit master merge?	True
Part of dREG master merge?	True