DBNascent | Samples

SRR2518199 Sample ID 2399

**Data sources**
Paper identifier	Strikoudis2016regulation
SRP accession	SRP064201
GEO accession	GSE73441
Samples	SRR2518199

**Technical details**
QC score	4
Replicate	1
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	26 Mb
Stranded gene read counts	TXT file	906 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	307 Kb
dREG bidirectional regions	BED file	88 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	4
Sample NRO score	2
Raw read length	51
Read depth after trimming	22,749,256
Duplication proportion	0.82872
Proportion reads mapped	0.7362
Exon/intron ratio	3.26326
Unique read proportion	0.18225

**Bidirectionals**
Total # Tfit bidirectionals	3604
# Promoter Tfit bidirectionals	797
# Intronic Tfit bidirectionals	1386
# Intergenic Tfit bidirectionals	272
Total # dREG bidirectionals	2056
# Promoter dREG bidirectionals	412
# Intronic dREG bidirectionals	668
# Intergenic dREG bidirectionals	697
Part of Tfit master merge?	False
Part of dREG master merge?	False