DBNascent | Samples

SRR1652077 Sample ID 2612

**Data sources**
Paper identifier	Wang2015lsd1n
SRP accession	SRP049780
GEO accession	GSE63271
Samples	SRR1652077

**Technical details**
QC score	2
Replicate	1
Protocol	GRO-seq
Library prep	ligation
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	63 Mb
Stranded gene read counts	TXT file	915 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	1 Mb
dREG bidirectional regions	BED file	516 Kb
All data files	ZIP archive

**Cellular details**
Organism	M. musculus
Sample type	primary cell
Cell type	cortical neuron
Clone/Individual
Strain
Genotype	Lsd1 exon 8a fl/fl; Nestin-Cre
Construct

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	KCl (55 mM)	-1 hr	0 hr	1 hr
treatment	tetrodotoxin (1 microM)	-15 hr	-1 hr	14 hr

**Extended notes**
Pipeline info and software versions
Sample notes	Labeled as hs43l4, but unclear the meaning - may be replicates?
Analysis notes	Ran qc redo nextflow

**Sample metrics**
Sample QC score	2
Sample NRO score	1
Raw read length	50
Read depth after trimming	33,307,750
Duplication proportion	0.6382
Proportion reads mapped	0.7421
Exon/intron ratio	2.71757
Unique read proportion	0.43729

**Bidirectionals**
Total # Tfit bidirectionals	14036
# Promoter Tfit bidirectionals	6114
# Intronic Tfit bidirectionals	5157
# Intergenic Tfit bidirectionals	1142
Total # dREG bidirectionals	11992
# Promoter dREG bidirectionals	5758
# Intronic dREG bidirectionals	3711
# Intergenic dREG bidirectionals	1498
Part of Tfit master merge?	True
Part of dREG master merge?	True