DBNascent | Samples

SRR6492229 Sample ID 534

**Data sources**
Paper identifier	Cuartero2020control
SRP accession	SRP130916
GEO accession	GSE108584
Samples	SRR6492229

**Technical details**
QC score	2
Replicate	2
Protocol	GRO-seq
Library prep	circularization
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	119 Mb
Stranded gene read counts	TXT file	919 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	2 Mb
dREG bidirectional regions	BED file	1006 Kb
All data files	ZIP archive

**Cellular details**
Organism	M. musculus
Sample type	primary cell
Cell type	bone marrow derived macrophage
Clone/Individual
Strain
Genotype	Rad21 fl/fl; tamoxifen-inducible Cre/+
Construct

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	hydroxytamoxifen (200 nM)	-73 hr	-1 hr	3 day
treatment	lipopolysaccharide (10 ng/mL)	-1 hr	0 hr	1 hr

**Extended notes**
Pipeline info and software versions
Sample notes	hydroxytamoxifen induces nuclear translocation of ERt2-Cre to knock out floxed fragment
Analysis notes	Ran qc redo nextflow

**Sample metrics**
Sample QC score	2
Sample NRO score	1
Raw read length	50
Read depth after trimming	52,201,994
Duplication proportion	0.54896
Proportion reads mapped	0.7548
Exon/intron ratio	1.72317
Unique read proportion	0.69149

**Bidirectionals**
Total # Tfit bidirectionals	23943
# Promoter Tfit bidirectionals	7101
# Intronic Tfit bidirectionals	8888
# Intergenic Tfit bidirectionals	6238
Total # dREG bidirectionals	23113
# Promoter dREG bidirectionals	6190
# Intronic dREG bidirectionals	9592
# Intergenic dREG bidirectionals	5863
Part of Tfit master merge?	True
Part of dREG master merge?	True