DBNascent | Samples

SRR988336 Sample ID 1457

**Data sources**
Paper identifier	Li2013ncor
SRP accession	SRP029986
GEO accession	GSE50944
Samples	SRR988336

**Technical details**
QC score	5
Replicate	3
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	16 Mb
Stranded gene read counts	TXT file	897 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	262 Kb
dREG bidirectional regions	BED file	55 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; LysM-Cre +/-
Construct

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
no treatment		None	None	None

**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	5
Sample NRO score	1
Raw read length	34
Read depth after trimming	5,366,044
Duplication proportion	0.55016
Proportion reads mapped	0.5376
Exon/intron ratio	2.42424
Unique read proportion	0.38138

**Bidirectionals**
Total # Tfit bidirectionals	3125
# Promoter Tfit bidirectionals	1359
# Intronic Tfit bidirectionals	999
# Intergenic Tfit bidirectionals	222
Total # dREG bidirectionals	1287
# Promoter dREG bidirectionals	696
# Intronic dREG bidirectionals	254
# Intergenic dREG bidirectionals	176
Part of Tfit master merge?	True
Part of dREG master merge?	True