DBNascent | Samples

SRR6936827 Sample ID 1569

**Data sources**
Paper identifier	Link2018analysis
SRP accession	SRP131922
GEO accession	GSE109965
Samples	SRR6936827

**Technical details**
QC score	4
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	experimental
Wildtype & Untreated?	False
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	21 Mb
Stranded gene read counts	TXT file	911 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file
dREG bidirectional regions	BED file	677 Kb
All data files	ZIP archive

**Cellular details**
Organism	M. musculus
Sample type	primary cell
Cell type	bone marrow derived macrophage
Clone/Individual
Strain	C57BL/6J
Genotype
Construct

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	Kdo2-Lipid A (10 ng/mL)	-1 hr	0 hr	1 hr

**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	2
Raw read length	20
Read depth after trimming	21,912,445
Duplication proportion	0.90288
Proportion reads mapped	0.776
Exon/intron ratio	3.7963
Unique read proportion	0.15255

**Bidirectionals**
Total # Tfit bidirectionals	None
# Promoter Tfit bidirectionals	None
# Intronic Tfit bidirectionals	None
# Intergenic Tfit bidirectionals	None
Total # dREG bidirectionals	15745
# Promoter dREG bidirectionals	6305
# Intronic dREG bidirectionals	5316
# Intergenic dREG bidirectionals	3200
Part of Tfit master merge?	False
Part of dREG master merge?	False