DBNascent | Samples

SRZ930682 Sample ID 1168

**Data sources**
Paper identifier	Kaikkonen2013remodeling
SRP accession	SRP026695
GEO accession	GSE48759
Samples	SRR930682
	SRR930683

**Technical details**
QC score	3
Replicate	5
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	77 Mb
Stranded gene read counts	TXT file	916 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	2 Mb
dREG bidirectional regions	BED file	695 Kb
All data files	ZIP archive

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

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	Kdo2-Lipid A (100 ng/mL)	-1 hr	0 hr	1 hr
treatment	serum starvation (0.5% FBS)	-15 hr	0 hr	15 hr

**Extended notes**
Pipeline info and software versions
Sample notes	Replicate information unclear
Analysis notes	Ran qc redo nextflow

**Sample metrics**
Sample QC score	3
Sample NRO score	2
Raw read length	48
Read depth after trimming	43,052,425
Duplication proportion	0.76129
Proportion reads mapped	0.8596
Exon/intron ratio	3.11931
Unique read proportion	0.49242

**Bidirectionals**
Total # Tfit bidirectionals	18886
# Promoter Tfit bidirectionals	7604
# Intronic Tfit bidirectionals	6263
# Intergenic Tfit bidirectionals	3383
Total # dREG bidirectionals	16011
# Promoter dREG bidirectionals	5908
# Intronic dREG bidirectionals	5490
# Intergenic dREG bidirectionals	3115
Part of Tfit master merge?	True
Part of dREG master merge?	True