DBNascent | Samples

SRR6660161 Sample ID 1530

**Data sources**
Paper identifier	Link2018analysis
SRP accession	SRP131922
GEO accession	GSE109965
Samples	SRR6660161

**Technical details**
QC score	4
Replicate	2
Protocol	GRO-cap
Library prep	ligation
Spike-in	None
Single/Paired end	single
Raw strandedness	forward
Reverse complemented?	False
Mapped strandedness	forward
Timecourse	False
Control/Experimental	control
Wildtype & Untreated?	True
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	15 Mb
Stranded gene read counts	TXT file	906 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	375 Kb
dREG bidirectional regions	BED file	276 Kb
All data files	ZIP archive

**Cellular details**
Organism	M. musculus
Sample type	primary cell
Cell type	bone marrow derived macrophage
Clone/Individual
Strain	BALB/cJ
Genotype
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	needs samtools/1.10 and 60Gb memory for samtools step; Major adapter contamination for some libraries and some very low/no read depth samples; Ran qc redo nextflow

**Sample metrics**
Sample QC score	4
Sample NRO score	1
Raw read length	20
Read depth after trimming	20,349,805
Duplication proportion	0.92972
Proportion reads mapped	0.5881
Exon/intron ratio	2.3357
Unique read proportion	0.08227

**Bidirectionals**
Total # Tfit bidirectionals	4405
# Promoter Tfit bidirectionals	1623
# Intronic Tfit bidirectionals	1359
# Intergenic Tfit bidirectionals	770
Total # dREG bidirectionals	6434
# Promoter dREG bidirectionals	3388
# Intronic dREG bidirectionals	1330
# Intergenic dREG bidirectionals	1057
Part of Tfit master merge?	False
Part of dREG master merge?	False