DBNascent | Samples

SRR6492227 Sample ID 532

**Data sources**
Paper identifier	Cuartero2020control
SRP accession	SRP130916
GEO accession	GSE108584
Samples	SRR6492227

**Technical details**
QC score	4
Replicate	1
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	58 Mb
Stranded gene read counts	TXT file	926 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	1 Mb
dREG bidirectional regions	BED file	636 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)	-78 hr	-6 hr	3 day
treatment	lipopolysaccharide (10 ng/mL)	-6 hr	0 hr	6 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	4
Sample NRO score	1
Raw read length	50
Read depth after trimming	116,492,554
Duplication proportion	0.92145
Proportion reads mapped	0.6299
Exon/intron ratio	1.8793
Unique read proportion	0.37652

**Bidirectionals**
Total # Tfit bidirectionals	15918
# Promoter Tfit bidirectionals	4994
# Intronic Tfit bidirectionals	5769
# Intergenic Tfit bidirectionals	3725
Total # dREG bidirectionals	14757
# Promoter dREG bidirectionals	5934
# Intronic dREG bidirectionals	4723
# Intergenic dREG bidirectionals	3139
Part of Tfit master merge?	True
Part of dREG master merge?	True