DBNascent | Samples

SRR1661575 Sample ID 804

**Data sources**
Paper identifier	Fong2014pre
SRP accession	SRP050215
GEO accession	GSE63375
Samples	SRR1661575

**Technical details**
QC score	5
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	10 Mb
Stranded gene read counts	TXT file	1 Mb
Unstranded bidirectional read counts	TXT file	21 Mb
Tfit bidirectional regions	BED file	25 Kb
dREG bidirectional regions	BED file	13 Kb
All data files	ZIP archive

**Cellular details**
Organism	H. sapiens
Sample type	cell line
Cell type	HEK293 Flp-In
Clone/Individual
Strain
Genotype	alpha-amanitin resistant, dox-inducible Rpb1 N792D/H1108Y (Flp knock-in)
Construct

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	DRB (100 microM)	-200 min	-20 min	3 hr
treatment	alpha-amanitin (2.5 microg/mL)	-2720 min	-200 min	42 hr
treatment	doxycycline (2 microg/mL)	-3560 min	-2720 min	14 hr

**Extended notes**
Pipeline info and software versions
Sample notes	Labeled H1106Y mutant in SRA/GEO, H1108Y in paper and H1108 matches RefSeq
Analysis notes	Very dirty data, contamination, many reads thrown out - about half sparse or very sparse; Ran qc redo nextflow

**Sample metrics**
Sample QC score	5
Sample NRO score	1
Raw read length	40
Read depth after trimming	3,855,230
Duplication proportion	0.82596
Proportion reads mapped	0.5573
Exon/intron ratio	1.69231
Unique read proportion	0.12337

**Bidirectionals**
Total # Tfit bidirectionals	266
# Promoter Tfit bidirectionals	142
# Intronic Tfit bidirectionals	134
# Intergenic Tfit bidirectionals	46
Total # dREG bidirectionals	312
# Promoter dREG bidirectionals	117
# Intronic dREG bidirectionals	66
# Intergenic dREG bidirectionals	144
Part of Tfit master merge?	True
Part of dREG master merge?	True