DBNascent | Samples

SRR531826 Sample ID 2597

**Data sources**
Paper identifier	Wang2014rna
SRP accession	SRP014688
GEO accession	GSE39878
Samples	SRR531826

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

**Downloads**
TDF visualization file	TDF file	74 Mb
Stranded gene read counts	TXT file	1 Mb
Unstranded bidirectional read counts	TXT file	21 Mb
Tfit bidirectional regions	BED file	3 Mb
dREG bidirectional regions	BED file	877 Kb
All data files	ZIP archive

**Cellular details**
Organism	H. sapiens
Sample type	cell line
Cell type	B cell
Clone/Individual	individual GM12004
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 repeatedly states that two pro-seq libraries were prepped, one in each lab, but the only full experiment list I could fine from GEO based on the inferred SRP says there are two GRO-seq libaries and one PRO-seq one.
Analysis notes	Ran qc redo nextflow

**Sample metrics**
Sample QC score	4
Sample NRO score	2
Raw read length	100
Read depth after trimming	77,873,871
Duplication proportion	0.81638
Proportion reads mapped	0.9075
Exon/intron ratio	4.2519
Unique read proportion	0.38655

**Bidirectionals**
Total # Tfit bidirectionals	30412
# Promoter Tfit bidirectionals	11853
# Intronic Tfit bidirectionals	13810
# Intergenic Tfit bidirectionals	3892
Total # dREG bidirectionals	20016
# Promoter dREG bidirectionals	7181
# Intronic dREG bidirectionals	8335
# Intergenic dREG bidirectionals	3289
Part of Tfit master merge?	True
Part of dREG master merge?	True