DBNascent | Samples

SRZ4012394 Sample ID 588

**Data sources**
Paper identifier	Danko2018dynamic
SRP accession	SRP081110
GEO accession	GSE85337
Samples	SRR4012394
	SRR4012395
	SRR4012398
	SRR4012399

**Technical details**
QC score	3
Replicate	2
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	experimental
Wildtype & Untreated?	False
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	98 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	726 Kb
All data files	ZIP archive

**Cellular details**
Organism	H. sapiens
Sample type	primary cell
Cell type	CD4+ T cell
Clone/Individual	individual 2
Strain
Genotype
Construct

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	ionomycin (1 mM)	-30 min	0 min	30 min
treatment	phorbol 12-myristate 13-acetate (25 ng/mL)	-30 min	0 min	30 min

**Extended notes**
Pipeline info and software versions
Sample notes	Two separate blood draws/cell preps from individual 2, so kid of bio reps, kind of tech reps; References Kwak2013precise for library prep, no specifics in paper or GEO
Analysis notes

**Sample metrics**
Sample QC score	3
Sample NRO score	2
Raw read length	50
Read depth after trimming	78,323,360
Duplication proportion	0.79467
Proportion reads mapped	0.8116
Exon/intron ratio	4.27758
Unique read proportion	0.4718

**Bidirectionals**
Total # Tfit bidirectionals	20455
# Promoter Tfit bidirectionals	7933
# Intronic Tfit bidirectionals	9259
# Intergenic Tfit bidirectionals	3013
Total # dREG bidirectionals	16646
# Promoter dREG bidirectionals	6716
# Intronic dREG bidirectionals	7180
# Intergenic dREG bidirectionals	2661
Part of Tfit master merge?	True
Part of dREG master merge?	True