DBNascent | Samples

SRR3728886 Sample ID 1801

**Data sources**
Paper identifier	Malinen2017crosstalk
SRP accession	SRP077580
GEO accession	GSE83860
Samples	SRR3728886

**Technical details**
QC score	2
Replicate	1
Protocol	GRO-seq
Library prep	circularization
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	73 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	520 Kb
All data files	ZIP archive

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

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	TNF-alpha (1000 U/mL)	-2 hr	0 hr	2 hr
treatment	dihydrotestosterone (100 nM)	-2 hr	0 hr	2 hr

**Extended notes**
Pipeline info and software versions
Sample notes
Analysis notes	Ran qc redo nextflow

**Sample metrics**
Sample QC score	2
Sample NRO score	1
Raw read length	51
Read depth after trimming	17,955,778
Duplication proportion	0.39307
Proportion reads mapped	0.9128
Exon/intron ratio	2.15843
Unique read proportion	0.62912

**Bidirectionals**
Total # Tfit bidirectionals	18823
# Promoter Tfit bidirectionals	7942
# Intronic Tfit bidirectionals	7648
# Intergenic Tfit bidirectionals	2948
Total # dREG bidirectionals	12059
# Promoter dREG bidirectionals	5832
# Intronic dREG bidirectionals	4370
# Intergenic dREG bidirectionals	2012
Part of Tfit master merge?	True
Part of dREG master merge?	True