DBNascent | Samples

SRZ2084576 Sample ID 434

**Data sources**
Paper identifier	Chen2015paf1
SRP accession	SRP060227
GEO accession	GSE70408
Samples	SRR2084576
	SRR2084577
	SRR2084578
	SRR2084579

**Technical details**
QC score	2
Replicate	1
Protocol	GRO-seq
Library prep	ligation
Spike-in	None
Single/Paired end	single
Raw strandedness	forward
Reverse complemented?	False
Mapped strandedness	forward
Timecourse	False
Control/Experimental	experimental
Wildtype & Untreated?	False
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	57 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	531 Kb
All data files	ZIP archive

**Cellular details**
Organism	H. sapiens
Sample type	cell line
Cell type	HCT116
Clone/Individual
Strain
Genotype
Construct	shRNA Paf1

**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	Not clear whether library prep was ligation or circularization
Analysis notes

**Sample metrics**
Sample QC score	2
Sample NRO score	2
Raw read length	35
Read depth after trimming	48,891,005
Duplication proportion	0.61175
Proportion reads mapped	0.3847
Exon/intron ratio	3.87908
Unique read proportion	0.45481

**Bidirectionals**
Total # Tfit bidirectionals	20234
# Promoter Tfit bidirectionals	7756
# Intronic Tfit bidirectionals	8771
# Intergenic Tfit bidirectionals	3115
Total # dREG bidirectionals	12337
# Promoter dREG bidirectionals	6046
# Intronic dREG bidirectionals	3995
# Intergenic dREG bidirectionals	2121
Part of Tfit master merge?	True
Part of dREG master merge?	True