DBNascent | Samples

SRZ1744514 Sample ID 2620

**Data sources**
Paper identifier	Wang2015molecular
SRP	SRP051769
Samples	SRR1744514
	SRR1744515

**Technical details**
QC score	3
Replicate	1
Protocol	GRO-seq
Library prep	ligation
Spike-in	None
Single/Paired end	single
Timecourse	True
Control/Experimental	experimental
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	58 Mb
Stranded gene read counts	TXT file	913 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	1 Mb
dREG bidirectional regions	BED file	383 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)	-200 min	-20 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	44,684,205
Duplication proportion	0.6658
Proportion reads mapped	0.5162
Exon/intron ratio	2.20418
Unique read proportion	0.35045

**Bidirectionals**
Total # Tfit bidirectionals	14736
# Promoter Tfit bidirectionals	3714
# Intronic Tfit bidirectionals	5677
# Intergenic Tfit bidirectionals	3549
Total # dREG bidirectionals	8897
# Promoter dREG bidirectionals	2726
# Intronic dREG bidirectionals	2940
# Intergenic dREG bidirectionals	2598
Part of Tfit master merge?	True
Part of dREG master merge?	True