DBNascent | Samples

SRR1560538 Sample ID 940

**Data sources**
Paper identifier	Hah2015inflammation
SRP accession	SRP045840
GEO accession	GSE60857
Samples	SRR1560538

**Technical details**
QC score	3
Replicate	2
Protocol	GRO-seq
Library prep	ligation
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	42 Mb
Stranded gene read counts	TXT file	903 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	1 Mb
dREG bidirectional regions	BED file	414 Kb
All data files	ZIP archive

**Cellular details**
Organism	M. musculus
Sample type	primary cell
Cell type	bone marrow derived macrophage
Clone/Individual
Strain	C57BL/6
Genotype
Construct

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	lipopolysaccharide (100 ng/mL)	-180 min	0 min	3 hr

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

**Sample metrics**
Sample QC score	3
Sample NRO score	2
Raw read length	51
Read depth after trimming	14,506,337
Duplication proportion	0.45073
Proportion reads mapped	0.5952
Exon/intron ratio	1.61374
Unique read proportion	0.55314

**Bidirectionals**
Total # Tfit bidirectionals	14761
# Promoter Tfit bidirectionals	3456
# Intronic Tfit bidirectionals	6403
# Intergenic Tfit bidirectionals	3780
Total # dREG bidirectionals	9597
# Promoter dREG bidirectionals	2965
# Intronic dREG bidirectionals	3826
# Intergenic dREG bidirectionals	2364
Part of Tfit master merge?	True
Part of dREG master merge?	True