DBNascent | Samples

SRR13242381 Sample ID 470

**Data sources**
Paper identifier	Chivu2020unpublished
SRP accession	SRP297666
GEO accession	GSE163048
Samples	SRR13242381

**Technical details**
QC score	3
Replicate	2
Protocol	ChRO-seq
Library prep	not noted in GEO or publication
Spike-in	None
Single/Paired end	single
Raw strandedness	forward
Reverse complemented?	False
Mapped strandedness	forward
Timecourse	False
Control/Experimental	control
Wildtype & Untreated?	True
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	101 Mb
Stranded gene read counts	TXT file
Unstranded bidirectional read counts	TXT file
Tfit bidirectional regions	BED file
dREG bidirectional regions	BED file
All data files	ZIP archive

**Cellular details**
Organism	E. caballus
Sample type	tissue
Cell type	liver
Clone/Individual	Chatty Patty mare
Strain
Genotype
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	CHRO-seq; https://doi.org/10.1101/2020.04.08.032730
Analysis notes	Lots of adapter contamination, did fastq-dump manually, force trimmed first 12 bases and base 65+ prior to running pipeline, ran pipeline on trimmed fastqs (with normal bbduk trimming included)

**Sample metrics**
Sample QC score	3
Sample NRO score	4
Raw read length	54
Read depth after trimming	28,359,892
Duplication proportion	0.77421
Proportion reads mapped	0.8557
Exon/intron ratio	8.64527
Unique read proportion	0.4237

**Bidirectionals**
Total # Tfit bidirectionals	None
# Promoter Tfit bidirectionals	None
# Intronic Tfit bidirectionals	None
# Intergenic Tfit bidirectionals	None
Total # dREG bidirectionals	None
# Promoter dREG bidirectionals	None
# Intronic dREG bidirectionals	None
# Intergenic dREG bidirectionals	None
Part of Tfit master merge?	True
Part of dREG master merge?	True