DBNascent | Samples

SRR3555068 Sample ID 1207

**Data sources**
Paper identifier	Kim2018pluripotency
SRP accession	SRP075469
GEO accession	GSE81677
Samples	SRR3555068

**Technical details**
QC score	4
Replicate	1
Protocol	PRO-cap
Library prep	ligation
Spike-in	None
Single/Paired end	single
Raw strandedness	forward
Reverse complemented?	False
Mapped strandedness	forward
Timecourse	False
Control/Experimental	control
Wildtype & Untreated?	True
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	21 Mb
Stranded gene read counts	TXT file	910 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	811 Kb
dREG bidirectional regions	BED file	375 Kb
All data files	ZIP archive

**Cellular details**
Organism	M. musculus
Sample type	cell line
Cell type	ESC
Clone/Individual
Strain
Genotype
Construct

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
no treatment		None	None	None

**Extended notes**
Pipeline info and software versions
Sample notes	Paper and data indicate ligation library prep, GEO metadata says circularization, no poly-A tail; Not completely clear if there was treatment, but I don't think so
Analysis notes

**Sample metrics**
Sample QC score	4
Sample NRO score	3
Raw read length	51
Read depth after trimming	31,661,925
Duplication proportion	0.83659
Proportion reads mapped	0.2313
Exon/intron ratio	5.58108
Unique read proportion	0.14544

**Bidirectionals**
Total # Tfit bidirectionals	9528
# Promoter Tfit bidirectionals	3596
# Intronic Tfit bidirectionals	2521
# Intergenic Tfit bidirectionals	2462
Total # dREG bidirectionals	8738
# Promoter dREG bidirectionals	5443
# Intronic dREG bidirectionals	1577
# Intergenic dREG bidirectionals	1271
Part of Tfit master merge?	True
Part of dREG master merge?	True