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SRR10669539 Sample ID 2311
| Paper identifier | Smith2021peppro |
| SRP accession | SRP236879 |
| GEO accession | GSE141843 |
| Samples | SRR10669539 |
| 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 | 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 | 25,790,563 |
| Duplication proportion | 0.17567 |
| Proportion reads mapped | 0.6269 |
| Exon/intron ratio | 4.74373 |
| Unique read proportion | 0.75042 |
| Total # Tfit bidirectionals | 30203 |
| # Promoter Tfit bidirectionals | 15495 |
| # Intronic Tfit bidirectionals | 11325 |
| # Intergenic Tfit bidirectionals | 4439 |
| Total # dREG bidirectionals | 20924 |
| # Promoter dREG bidirectionals | 9470 |
| # Intronic dREG bidirectionals | 8456 |
| # Intergenic dREG bidirectionals | 3036 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |