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SRR6904131 Sample ID 170
| Paper identifier | Aprile-garcia2019nascent |
| SRP accession | SRP136551 |
| GEO accession | GSE112379 |
| Samples | SRR6904131 |
| QC score | 2 |
| Replicate | 3 |
| 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 | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 83 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 |
| treatment | heat shock (43 Celsius) | -90 min | 0 min | 90 min |
| 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 | 2 |
| Sample NRO score | 4 |
| Raw read length | 50 |
| Read depth after trimming | 18,881,509 |
| Duplication proportion | 0.34987 |
| Proportion reads mapped | 0.8979 |
| Exon/intron ratio | 7.3805 |
| Unique read proportion | 0.68764 |
| Total # Tfit bidirectionals | 37661 |
| # Promoter Tfit bidirectionals | 16233 |
| # Intronic Tfit bidirectionals | 15535 |
| # Intergenic Tfit bidirectionals | 6339 |
| Total # dREG bidirectionals | 29358 |
| # Promoter dREG bidirectionals | 9038 |
| # Intronic dREG bidirectionals | 13001 |
| # Intergenic dREG bidirectionals | 5939 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |