DBNascent | Samples

SRR6492224 Sample ID 529

**Data sources**
Paper identifier	Cuartero2020control
SRP accession	SRP130916
GEO accession	GSE108584
Samples	SRR6492224

**Technical details**
QC score	3
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	94 Mb
Stranded gene read counts	TXT file	920 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	2 Mb
dREG bidirectional regions	BED file	816 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 +/+; 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	3
Sample NRO score	1
Raw read length	50
Read depth after trimming	66,523,186
Duplication proportion	0.79601
Proportion reads mapped	0.8605
Exon/intron ratio	1.49889
Unique read proportion	0.54467

**Bidirectionals**
Total # Tfit bidirectionals	18184
# Promoter Tfit bidirectionals	5570
# Intronic Tfit bidirectionals	6477
# Intergenic Tfit bidirectionals	4611
Total # dREG bidirectionals	18849
# Promoter dREG bidirectionals	6067
# Intronic dREG bidirectionals	7077
# Intergenic dREG bidirectionals	4525
Part of Tfit master merge?	True
Part of dREG master merge?	True