DBNascent | Samples

SRR13114384 Sample ID 2824

**Data sources**
Paper identifier	Zhang2021physiological
SRP accession	SRP293909
GEO accession	GSE162010
Samples	SRR13114384

**Technical details**
QC score	1
Replicate	3
Protocol	GRO-seq
Library prep	ligation
Spike-in	None
Single/Paired end	paired
Raw strandedness	read1 forward
Reverse complemented?	True
Mapped strandedness	read1 forward
Timecourse	False
Control/Experimental	experimental
Wildtype & Untreated?	False
Outlier	No
Unusable	No

**Downloads**
TDF visualization file	TDF file	152 Mb
Stranded gene read counts	TXT file	918 Kb
Unstranded bidirectional read counts	TXT file	17 Mb
Tfit bidirectional regions	BED file	3 Mb
dREG bidirectional regions	BED file	905 Kb
All data files	ZIP archive

**Cellular details**
Organism	M. musculus
Sample type	primary cell
Cell type	splenic B cell
Clone/Individual
Strain
Genotype	Aid -/-; 3' IgH CBE -/-
Construct

**Conditions and treatments**
Condition type	Treatment	Start time	End time	Duration
treatment	anti-CD40 (1 microg/mL)	-4 day	0 day	4 day
treatment	interleukin-4 (20 ng/mL)	-4 day	0 day	4 day

**Extended notes**
Pipeline info and software versions
Sample notes	Paper says stim was 96 hr, GEO entries say 48 hrs
Analysis notes	Originally in db until 4/19/2021 as Zhang2021unpublished, all scripts changed but original outerr and logs reflect previous ID

**Sample metrics**
Sample QC score	1
Sample NRO score	1
Raw read length	76
Read depth after trimming	34,766,071
Duplication proportion	0.27918
Proportion reads mapped	0.6732
Exon/intron ratio	2.22265
Unique read proportion	0.66535

**Bidirectionals**
Total # Tfit bidirectionals	31310
# Promoter Tfit bidirectionals	8087
# Intronic Tfit bidirectionals	12930
# Intergenic Tfit bidirectionals	6176
Total # dREG bidirectionals	20756
# Promoter dREG bidirectionals	4896
# Intronic dREG bidirectionals	8356
# Intergenic dREG bidirectionals	4878
Part of Tfit master merge?	True
Part of dREG master merge?	True