DBNascent | Samples

SRZ1744512 Sample ID 2620

**Data sources**
Paper identifier	Wang2015molecular
SRP accession	SRP051769
GEO accession	GSE64748
Samples	SRR1744512
	SRR1744513

**Technical details**
QC score	3
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	True
Control/Experimental	experimental
Wildtype & Untreated?	False
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	44 Mb
Stranded gene read counts	TXT file	909 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	1 Mb
dREG bidirectional regions	BED file	370 Kb
All data files	ZIP archive

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

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	DRB (100 mM)	-190 min	-10 min	3 hr

**Extended notes**
Pipeline info and software versions
Sample notes
Analysis notes	May needs samtools/1.10 and 60Gb memory for samtools step (that is in my notes but does not match running script, which uses samtools 1.8); One sample required rerun of picardtools; Ran qc redo nextflow

**Sample metrics**
Sample QC score	3
Sample NRO score	2
Raw read length	40
Read depth after trimming	38,368,620
Duplication proportion	0.72832
Proportion reads mapped	0.5075
Exon/intron ratio	2.13905
Unique read proportion	0.2844

**Bidirectionals**
Total # Tfit bidirectionals	17525
# Promoter Tfit bidirectionals	4333
# Intronic Tfit bidirectionals	6812
# Intergenic Tfit bidirectionals	4123
Total # dREG bidirectionals	8592
# Promoter dREG bidirectionals	2969
# Intronic dREG bidirectionals	2717
# Intergenic dREG bidirectionals	2278
Part of Tfit master merge?	True
Part of dREG master merge?	True