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SRR10669540 Sample ID 2312
| Paper identifier | Smith2021peppro |
| SRP accession | SRP236879 |
| GEO accession | GSE141843 |
| Samples | SRR10669540 |
| QC score | 1 |
| Replicate | 2 |
| 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 | cell line |
| Cell type | ESC |
| Clone/Individual | H9 |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | romidepsin (200 nM) | -1 hr | 0 hr | 1 hr |
| Pipeline info and software versions | |
| Sample notes | No library details specified, cites Sathyan2019 |
| Analysis notes | Ran qc redo nextflow; Previous identifier until 6/15/21 was Guertin2019unpublished, some documentation reflects that |
| Sample QC score | 1 |
| Sample NRO score | 2 |
| Raw read length | 35 |
| Read depth after trimming | 26,049,630 |
| Duplication proportion | 0.14092 |
| Proportion reads mapped | 0.6707 |
| Exon/intron ratio | 4.56427 |
| Unique read proportion | 0.78063 |
| Total # Tfit bidirectionals | 31731 |
| # Promoter Tfit bidirectionals | 16014 |
| # Intronic Tfit bidirectionals | 11819 |
| # Intergenic Tfit bidirectionals | 4969 |
| Total # dREG bidirectionals | 22123 |
| # Promoter dREG bidirectionals | 9442 |
| # Intronic dREG bidirectionals | 9029 |
| # Intergenic dREG bidirectionals | 3505 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |