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SRR12634523 Sample ID 202
| Paper identifier | Barbieri2020rapid |
| SRP accession | SRP242477 |
| GEO accession | GSE143844 |
| Samples | SRR12634523 |
| QC score | 4 |
| 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 | True |
| Control/Experimental | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 38 Mb |
| Stranded gene read counts | TXT file | 1 Mb |
| Unstranded bidirectional read counts | TXT file | 21 Mb |
| All data files | ZIP archive | |
| Organism | H. sapiens |
| Sample type | cell line |
| Cell type | THP1 |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | flavopiridol (2 microM) | -125 min | -5 min | 2 hr |
| treatment | lipopolysaccharide (5 microg/mL) | -5 min | 0 min | 5 min |
| Pipeline info and software versions | |
| Sample notes | fastGRO (run-on with 4sU); 20 million cells, biotin-HPDP for biotinylation |
| Analysis notes |
| Sample QC score | 4 |
| Sample NRO score | 3 |
| Raw read length | 35 |
| Read depth after trimming | 8,541,132 |
| Duplication proportion | 0.47901 |
| Proportion reads mapped | 0.9477 |
| Exon/intron ratio | 5.81148 |
| Unique read proportion | 0.28615 |
| 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 |