DBNascent | Samples

SRZ1744516 Sample ID 2621

**Data sources**
Paper identifier	Wang2015molecular
SRP	SRP051769
Samples	SRR1744516
	SRR1744517

**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	48 Mb
Stranded gene read counts	TXT file	910 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	935 Kb
dREG bidirectional regions	BED file	288 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)	-210 min	-30 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	34,872,535
Duplication proportion	0.68376
Proportion reads mapped	0.5548
Exon/intron ratio	1.84941
Unique read proportion	0.32768

**Bidirectionals**
Total # Tfit bidirectionals	10938
# Promoter Tfit bidirectionals	2772
# Intronic Tfit bidirectionals	4305
# Intergenic Tfit bidirectionals	2570
Total # dREG bidirectionals	6686
# Promoter dREG bidirectionals	2090
# Intronic dREG bidirectionals	2221
# Intergenic dREG bidirectionals	1963
Part of Tfit master merge?	True
Part of dREG master merge?	True