DBNascent | Samples

SRR2036966 Sample ID 788

**Data sources**
Paper identifier	Flynn20167skbaf
SRP accession	SRP058597
GEO accession	GSE69142
Samples	SRR2036966

**Technical details**
QC score	3
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	control
Wildtype & Untreated?	False
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	29 Mb
Stranded gene read counts	TXT file	911 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	639 Kb
dREG bidirectional regions	BED file	289 Kb
All data files	ZIP archive

**Cellular details**
Organism	M. musculus
Sample type	cell line
Cell type	ESC
Clone/Individual	V6.5
Strain
Genotype
Construct

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	control antisense oligonucleotide (1 nmole/2 million cells)	-12 hr	0 hr	12 hr

**Extended notes**
Pipeline info and software versions
Sample notes
Analysis notes	dirty data - did fastq-dump manually, force trimmed first 25 bp and bp 65+ prior to running pipeline, ran pipeline on trimmed fastqs (with normal bbduk trimming included), a few samples still sparse due to major adapter contamination

**Sample metrics**
Sample QC score	3
Sample NRO score	1
Raw read length	41
Read depth after trimming	21,344,456
Duplication proportion	0.77659
Proportion reads mapped	0.5691
Exon/intron ratio	2.73128
Unique read proportion	0.25448

**Bidirectionals**
Total # Tfit bidirectionals	7450
# Promoter Tfit bidirectionals	2669
# Intronic Tfit bidirectionals	1987
# Intergenic Tfit bidirectionals	1471
Total # dREG bidirectionals	6730
# Promoter dREG bidirectionals	3567
# Intronic dREG bidirectionals	1279
# Intergenic dREG bidirectionals	1316
Part of Tfit master merge?	False
Part of dREG master merge?	False