SRZ4012415 Sample ID 596

Data sources
Paper identifier Danko2018dynamic
SRP accession SRP081110
GEO accession GSE85337
Samples SRR4012415
SRR4012416
Technical details
QC score 4
Replicate 4
Protocol PRO-seq
Library prep ligation
Spike-in None
Single/Paired end single
Raw strandedness reverse
Reverse complemented? True
Mapped strandedness forward
Timecourse False
Control/Experimental control
Wildtype & Untreated? True
Outlier No
Unusable No
Downloads
TDF visualization file TDF file 269 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 M. mulatta
Sample type primary cell
Cell type CD4+ T cell
Clone/Individual individual 1
Strain
Genotype
Construct
Conditions and treatments
Condition type Treatment Start time End time Duration
vehicle ethanol -30 min 0 min 30 min
vehicle DMSO -30 min 0 min 30 min
Extended notes
Pipeline info and software versions
Sample notes Individual 1, but no corresponding treatment - wanted to keep reps from same individual consistent, so made these rep4; References Kwak2013precise for library prep, no specifics in paper or GEO
Analysis notes
Sample metrics
Sample QC score 4
Sample NRO score 2
Raw read length 51
Read depth after trimming 10,342,444
Duplication proportion 0.60709
Proportion reads mapped 0.7665
Exon/intron ratio 3.88153
Unique read proportion 0.34136
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