DBNascent | Samples

SRZ930659 Sample ID 1163

**Data sources**
Paper identifier	Kaikkonen2013remodeling
SRP accession	SRP026695
GEO accession	GSE48759
Samples	SRR930659
	SRR930660
	SRR930661
	SRR930662

**Technical details**
QC score	2
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	76 Mb
Stranded gene read counts	TXT file	913 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	2 Mb
dREG bidirectional regions	BED file	643 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	2
Sample NRO score	1
Raw read length	34
Read depth after trimming	35,871,470
Duplication proportion	0.60138
Proportion reads mapped	0.7323
Exon/intron ratio	2.30218
Unique read proportion	0.51317

**Bidirectionals**
Total # Tfit bidirectionals	18448
# Promoter Tfit bidirectionals	7072
# Intronic Tfit bidirectionals	6375
# Intergenic Tfit bidirectionals	3200
Total # dREG bidirectionals	14825
# Promoter dREG bidirectionals	5128
# Intronic dREG bidirectionals	5407
# Intergenic dREG bidirectionals	2803
Part of Tfit master merge?	True
Part of dREG master merge?	True