DBNascent | Samples

SRR988339 Sample ID 1459

**Data sources**
Paper identifier	Li2013ncor
SRP	SRP029986
Samples	SRR988339

**Technical details**
QC score	4
Replicate	2
Protocol	GRO-seq
Library prep	circularization
Spike-in	None
Single/Paired end	single
Timecourse	True
Control/Experimental	experimental
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	25 Mb
Stranded gene read counts	TXT file	903 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	832 Kb
dREG bidirectional regions	BED file	298 Kb
All data files	ZIP archive

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

**Extended notes**
Pipeline info and software versions
Sample notes	replicate info not clear, but implies biological in paper
Analysis notes	Ran qc redo nextflow; Originally labeled and processed as technical replicates, but paper implies biological - kept tech rep processed data just in case but removed SRZ labels from metadata

**Sample metrics**
Sample QC score	4
Sample NRO score	1
Raw read length	34
Read depth after trimming	8,226,437
Duplication proportion	0.57468
Proportion reads mapped	0.7057
Exon/intron ratio	2.82534
Unique read proportion	0.33856

**Bidirectionals**
Total # Tfit bidirectionals	9816
# Promoter Tfit bidirectionals	3915
# Intronic Tfit bidirectionals	3395
# Intergenic Tfit bidirectionals	1511
Total # dREG bidirectionals	6911
# Promoter dREG bidirectionals	3415
# Intronic dREG bidirectionals	1951
# Intergenic dREG bidirectionals	906
Part of Tfit master merge?	True
Part of dREG master merge?	True