DBNascent | Samples

SRR2226207 Sample ID 789

**Data sources**
Paper identifier	Flynn20167skbaf
SRP accession	SRP058597
GEO accession	GSE69142
Samples	SRR2226207

**Technical details**
QC score	2
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	False
Control/Experimental	experimental
Wildtype & Untreated?	False
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	149 Mb
Stranded gene read counts	TXT file	927 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	3 Mb
dREG bidirectional regions	BED file	1 Mb
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	7SK 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	2
Sample NRO score	2
Raw read length	31
Read depth after trimming	77,186,504
Duplication proportion	0.5234
Proportion reads mapped	0.6182
Exon/intron ratio	2.49366
Unique read proportion	0.63549

**Bidirectionals**
Total # Tfit bidirectionals	38230
# Promoter Tfit bidirectionals	10492
# Intronic Tfit bidirectionals	11854
# Intergenic Tfit bidirectionals	13019
Total # dREG bidirectionals	33503
# Promoter dREG bidirectionals	8100
# Intronic dREG bidirectionals	11876
# Intergenic dREG bidirectionals	11837
Part of Tfit master merge?	False
Part of dREG master merge?	False