DBNascent | Samples

SRR2518201 Sample ID 2401

**Data sources**
Paper identifier	Strikoudis2016regulation
SRP accession	SRP064201
GEO accession	GSE73441
Samples	SRR2518201

**Technical details**
QC score	3
Replicate	3
Protocol	GRO-seq
Library prep	ligation
Spike-in	None
Single/Paired end	single
Raw strandedness	reverse
Reverse complemented?	True
Mapped strandedness	forward
Timecourse	False
Control/Experimental	experimental
Wildtype & Untreated?	False
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	30 Mb
Stranded gene read counts	TXT file	907 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	344 Kb
dREG bidirectional regions	BED file	115 Kb
All data files	ZIP archive

**Cellular details**
Organism	M. musculus
Sample type	cell line
Cell type	ESC
Clone/Individual	KH2
Strain	C57BL/6 x 129/Sv
Genotype	dox-inducible shRNA Phf5a (stable)
Construct

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	LIF (1000 U/mL)	None	None	None
treatment	doxycycline (2 microg/mL)	-3 day	0 day	3 day

**Extended notes**
Pipeline info and software versions
Sample notes	LIF treatment maintains pluripotency
Analysis notes

**Sample metrics**
Sample QC score	3
Sample NRO score	2
Raw read length	51
Read depth after trimming	22,050,340
Duplication proportion	0.79623
Proportion reads mapped	0.755
Exon/intron ratio	4.16135
Unique read proportion	0.21764

**Bidirectionals**
Total # Tfit bidirectionals	4042
# Promoter Tfit bidirectionals	840
# Intronic Tfit bidirectionals	1754
# Intergenic Tfit bidirectionals	396
Total # dREG bidirectionals	2686
# Promoter dREG bidirectionals	448
# Intronic dREG bidirectionals	970
# Intergenic dREG bidirectionals	1029
Part of Tfit master merge?	False
Part of dREG master merge?	False