DBNascent | Samples

SRR930690 Sample ID 1154

**Data sources**
Paper identifier	Kaikkonen2013remodeling
SRP accession	SRP026695
GEO accession	GSE48759
Samples	SRR930690

**Technical details**
QC score	4
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	False
Control/Experimental	experimental
Wildtype & Untreated?	False
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	20 Mb
Stranded gene read counts	TXT file	900 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	521 Kb
dREG bidirectional regions	BED file	219 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	flavopiridol (1 microM)	-2 hr	0 hr	2 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	4
Sample NRO score	2
Raw read length	53
Read depth after trimming	17,134,258
Duplication proportion	0.89711
Proportion reads mapped	0.7361
Exon/intron ratio	4.56522
Unique read proportion	0.15251

**Bidirectionals**
Total # Tfit bidirectionals	6142
# Promoter Tfit bidirectionals	1824
# Intronic Tfit bidirectionals	2519
# Intergenic Tfit bidirectionals	874
Total # dREG bidirectionals	5089
# Promoter dREG bidirectionals	1952
# Intronic dREG bidirectionals	1934
# Intergenic dREG bidirectionals	918
Part of Tfit master merge?	True
Part of dREG master merge?	True