Explore DBNascent | browse or search sample metadata

Search

Advanced Search

All Samples

Samples By Dataset

Sample Details

SRR6128874 Sample ID 2500

**Data sources**
Paper identifier	Trizzino2018tumor
SRP accession	SRP119318
GEO accession	GSE104545
Samples	SRR6128874

**Technical details**
QC score	2
Replicate	1
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	162 Mb
Stranded gene read counts	TXT file	1 Mb
Unstranded bidirectional read counts	TXT file	21 Mb
Tfit bidirectional regions	BED file	2 Mb
dREG bidirectional regions	BED file	945 Kb
All data files	ZIP archive

**Cellular details**
Organism	H. sapiens
Sample type	cell line
Cell type	RMG1
Clone/Individual
Strain
Genotype
Construct	dox-inducible shRNA Arid1A

**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	Ctrl condition not crystal clear, but based on WB data, seems Ctrl is D0 of dox treatment
Analysis notes	Ran qc redo nextflow

**Sample metrics**
Sample QC score	2
Sample NRO score	2
Raw read length	76
Read depth after trimming	111,788,349
Duplication proportion	0.57025
Proportion reads mapped	0.5181
Exon/intron ratio	2.3574
Unique read proportion	0.61823

**Bidirectionals**
Total # Tfit bidirectionals	28342
# Promoter Tfit bidirectionals	6516
# Intronic Tfit bidirectionals	13517
# Intergenic Tfit bidirectionals	7105
Total # dREG bidirectionals	21782
# Promoter dREG bidirectionals	4969
# Intronic dREG bidirectionals	10318
# Intergenic dREG bidirectionals	6111
Part of Tfit master merge?	True
Part of dREG master merge?	True