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SRR6904128 Sample ID 167
| Paper identifier | Aprile-garcia2019nascent |
| SRP accession | SRP136551 |
| GEO accession | GSE112379 |
| Samples | SRR6904128 |
| QC score | 1 |
| 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 |
| TDF visualization file | TDF file | 134 Mb |
| Stranded gene read counts | TXT file | 1 Mb |
| Unstranded bidirectional read counts | TXT file | 21 Mb |
| Tfit bidirectional regions | BED file | 3 Mb |
| dREG bidirectional regions | BED file | 1 Mb |
| All data files | ZIP archive | |
| Organism | H. sapiens |
| Sample type | cell line |
| Cell type | HEK293T Flp-In |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| no treatment | None | None | None |
| Pipeline info and software versions | |
| Sample notes | States in notes that cycloheximide and NSC624206 were used as pretreatment for heat shock, but based on paper results section this seems to not be the case for the PRO-seq samples |
| Analysis notes |
| Sample QC score | 1 |
| Sample NRO score | 2 |
| Raw read length | 75 |
| Read depth after trimming | 39,133,326 |
| Duplication proportion | 0.43107 |
| Proportion reads mapped | 0.9104 |
| Exon/intron ratio | 4.81513 |
| Unique read proportion | 0.6861 |
| Total # Tfit bidirectionals | 37278 |
| # Promoter Tfit bidirectionals | 19814 |
| # Intronic Tfit bidirectionals | 13103 |
| # Intergenic Tfit bidirectionals | 4997 |
| Total # dREG bidirectionals | 23247 |
| # Promoter dREG bidirectionals | 8827 |
| # Intronic dREG bidirectionals | 8851 |
| # Intergenic dREG bidirectionals | 4258 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |