DBNascent | Samples

SRZ1744500 Sample ID 2614

**Data sources**
Paper identifier	Wang2015molecular
SRP accession	SRP051769
GEO accession	GSE64748
Samples	SRR1744500
	SRR1744501

**Technical details**
QC score	4
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	19 Mb
Stranded gene read counts	TXT file	897 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	816 Kb
dREG bidirectional regions	BED file	340 Kb
All data files	ZIP archive

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

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	DRB (100 mM)	-3 hr	0 hr	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	4
Sample NRO score	1
Raw read length	40
Read depth after trimming	27,927,607
Duplication proportion	0.86155
Proportion reads mapped	0.3777
Exon/intron ratio	1.6383
Unique read proportion	0.1366

**Bidirectionals**
Total # Tfit bidirectionals	9728
# Promoter Tfit bidirectionals	3787
# Intronic Tfit bidirectionals	3406
# Intergenic Tfit bidirectionals	1420
Total # dREG bidirectionals	7909
# Promoter dREG bidirectionals	4174
# Intronic dREG bidirectionals	1896
# Intergenic dREG bidirectionals	1136
Part of Tfit master merge?	True
Part of dREG master merge?	True