DBNascent | Samples

SRR6660278 Sample ID 1541

**Data sources**
Paper identifier	Link2018analysis
SRP accession	SRP131922
GEO accession	GSE109965
Samples	SRR6660278

**Technical details**
QC score	1
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	False
Control/Experimental	control
Wildtype & Untreated?	True
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	72 Mb
Stranded gene read counts	TXT file	914 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	2 Mb
dREG bidirectional regions	BED file	827 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 mice(f) x PWK/PhJ(m)
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	1
Sample NRO score	1
Raw read length	35
Read depth after trimming	30,011,599
Duplication proportion	0.43841
Proportion reads mapped	0.6728
Exon/intron ratio	2.31542
Unique read proportion	0.62474

**Bidirectionals**
Total # Tfit bidirectionals	22259
# Promoter Tfit bidirectionals	7404
# Intronic Tfit bidirectionals	7679
# Intergenic Tfit bidirectionals	5442
Total # dREG bidirectionals	19103
# Promoter dREG bidirectionals	6199
# Intronic dREG bidirectionals	7169
# Intergenic dREG bidirectionals	4458
Part of Tfit master merge?	False
Part of dREG master merge?	False