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SRR8457217 Sample ID 2028
| Paper identifier | Parida2019nucleotide |
| SRP accession | SRP141182 |
| GEO accession | GSE113394 |
| Samples | SRR8457217 |
| QC score | 1 |
| Replicate | 1 |
| Protocol | PRO-seq |
| Library prep | ligation |
| Spike-in | None |
| 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 |
| 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 | primary cell |
| Cell type | foreskin fibroblast |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| vehicle | DMSO (0.1%) | -1 hr | 0 hr | 1 hr |
| treatment | HCMV strain TB40/E (MOI 3) | -4 hr | 0 hr | 4 hr |
| Pipeline info and software versions | |
| Sample notes | MOI around 3 |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 1 |
| Sample NRO score | 1 |
| Raw read length | 151 |
| Read depth after trimming | 67,369,045 |
| Duplication proportion | 0.47125 |
| Proportion reads mapped | 0.7116 |
| Exon/intron ratio | 2.57419 |
| Unique read proportion | 0.53976 |
| Total # Tfit bidirectionals | 23872 |
| # Promoter Tfit bidirectionals | 10752 |
| # Intronic Tfit bidirectionals | 9051 |
| # Intergenic Tfit bidirectionals | 3821 |
| Total # dREG bidirectionals | 17517 |
| # Promoter dREG bidirectionals | 7924 |
| # Intronic dREG bidirectionals | 6793 |
| # Intergenic dREG bidirectionals | 2854 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |