DBNascent | Samples

SRZ930663 Sample ID 1164

**Data sources**
Paper identifier	Kaikkonen2013remodeling
SRP accession	SRP026695
GEO accession	GSE48759
Samples	SRR930663
	SRR930664

**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	28 Mb
Stranded gene read counts	TXT file	902 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	878 Kb
dREG bidirectional regions	BED file	303 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)	-6 hr	0 hr	6 hr
treatment	serum starvation (0.5% FBS)	-20 hr	0 hr	20 hr

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

**Sample metrics**
Sample QC score	4
Sample NRO score	2
Raw read length	34
Read depth after trimming	6,350,381
Duplication proportion	0.27607
Proportion reads mapped	0.7635
Exon/intron ratio	3.16733
Unique read proportion	0.66651

**Bidirectionals**
Total # Tfit bidirectionals	10413
# Promoter Tfit bidirectionals	4473
# Intronic Tfit bidirectionals	3395
# Intergenic Tfit bidirectionals	1540
Total # dREG bidirectionals	7048
# Promoter dREG bidirectionals	3631
# Intronic dREG bidirectionals	1798
# Intergenic dREG bidirectionals	955
Part of Tfit master merge?	True
Part of dREG master merge?	True