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SRR10502421 Sample ID 264
| Paper identifier | Birkenheuer2020rna |
| SRP accession | SRP193891 |
| GEO accession | GSE130342 |
| Samples | SRR10502421 |
| QC score | 3 |
| Replicate | 1 |
| Protocol | PRO-seq |
| Library prep | ligation |
| Spike-in | D. melanogaster |
| 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 | |
| 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 | |
| Organism | H. sapiens |
| Sample type | cell line |
| Cell type | HEp2 |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | HSV-1 (MOI 5) | -6 hr | -5 hr | 1 hr |
| treatment | flavopiridol (450 nM) | -6 hr | 0 hr | 6 hr |
| Pipeline info and software versions | |
| Sample notes | length of flavopiridol treatment unclear - could be 1 hr or 6 hr |
| Analysis notes |
| Sample QC score | 3 |
| Sample NRO score | 5 |
| Raw read length | 35 |
| Read depth after trimming | 27,309,578 |
| Duplication proportion | 0.76584 |
| Proportion reads mapped | 0.6715 |
| Exon/intron ratio | 14.3402 |
| Unique read proportion | 0.28009 |
| Total # Tfit bidirectionals | 24836 |
| # Promoter Tfit bidirectionals | 9356 |
| # Intronic Tfit bidirectionals | 10782 |
| # Intergenic Tfit bidirectionals | 4951 |
| Total # dREG bidirectionals | 20228 |
| # Promoter dREG bidirectionals | 8669 |
| # Intronic dREG bidirectionals | 8268 |
| # Intergenic dREG bidirectionals | 3539 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |