DBNascent | Samples

SRZ1744508 Sample ID 2617

**Data sources**
Paper identifier	Wang2015molecular
SRP	SRP051769
Samples	SRR1744508
	SRR1744509

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

**Downloads**
TDF visualization file	TDF file	41 Mb
Stranded gene read counts	TXT file	910 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
no treatment		None	None	None

**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	1
Raw read length	40
Read depth after trimming	42,592,723
Duplication proportion	0.77191
Proportion reads mapped	0.5147
Exon/intron ratio	1.77289
Unique read proportion	0.2392

**Bidirectionals**
Total # Tfit bidirectionals	13226
# Promoter Tfit bidirectionals	4909
# Intronic Tfit bidirectionals	3986
# Intergenic Tfit bidirectionals	2887
Total # dREG bidirectionals	8608
# Promoter dREG bidirectionals	3906
# Intronic dREG bidirectionals	1943
# Intergenic dREG bidirectionals	2037
Part of Tfit master merge?	True
Part of dREG master merge?	True