SRR10906604 Sample ID 188

Data sources
Paper identifier Barbieri2020rapid
SRP accession SRP242477
GEO accession GSE143844
Samples SRR10906604
Technical details
QC score 2
Replicate 1
Protocol GRO-seq variant
Library prep random primed
Spike-in D. melanogaster
Single/Paired end paired
Raw strandedness read1 reverse
Reverse complemented? False
Mapped strandedness read1 reverse
Timecourse False
Control/Experimental experimental
Wildtype & Untreated? False
Outlier No
Unusable No
Downloads
TDF visualization file TDF file 155 Mb
Stranded gene read counts TXT file 1 Mb
Unstranded bidirectional read counts TXT file 21 Mb
All data files ZIP archive
Cellular details
Organism H. sapiens
Sample type cell line
Cell type THP1
Clone/Individual
Strain
Genotype
Construct
Conditions and treatments
Condition type Treatment Start time End time Duration
treatment lipopolysaccharide (5 microg/mL) -4 hr 0 hr 4 hr
Extended notes
Pipeline info and software versions
Sample notes fastGRO (run-on with 4sU); 20 million cells, biotin-HPDP for biotinylation
Analysis notes
Sample metrics
Sample QC score 2
Sample NRO score 1
Raw read length 35
Read depth after trimming 42,614,486
Duplication proportion 0.51259
Proportion reads mapped 0.7469
Exon/intron ratio 2.59893
Unique read proportion 0.56738
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