DBNascent | Samples

SRR6660302 Sample ID 1547

**Data sources**
Paper identifier	Link2018analysis
SRP accession	SRP131922
GEO accession	GSE109965
Samples	SRR6660302

**Technical details**
QC score	5
Replicate	1
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	7 Mb
Stranded gene read counts	TXT file	890 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	501 Kb
dREG bidirectional regions	BED file	232 Kb
All data files	ZIP archive

**Cellular details**
Organism	M. musculus
Sample type	primary cell
Cell type	bone marrow derived macrophage
Clone/Individual
Strain	NOD/ShiLtJ
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	5
Sample NRO score	1
Raw read length	50
Read depth after trimming	1,255,883
Duplication proportion	0.54321
Proportion reads mapped	0.7258
Exon/intron ratio	2.96774
Unique read proportion	0.14079

**Bidirectionals**
Total # Tfit bidirectionals	6004
# Promoter Tfit bidirectionals	2158
# Intronic Tfit bidirectionals	2010
# Intergenic Tfit bidirectionals	1441
Total # dREG bidirectionals	5414
# Promoter dREG bidirectionals	2771
# Intronic dREG bidirectionals	1244
# Intergenic dREG bidirectionals	1039
Part of Tfit master merge?	False
Part of dREG master merge?	False