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SRR7519712 Sample ID 2578
| Paper identifier | Viiri2019extensive |
| SRP accession | SRP153391 |
| GEO accession | GSE117086 |
| Samples | SRR7519712 |
| QC score | 2 |
| Replicate | 3 |
| Protocol | GRO-seq |
| Library prep | circularization |
| Spike-in | None |
| Single/Paired end | single |
| Raw strandedness | forward |
| Reverse complemented? | False |
| 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 | iPSC |
| Clone/Individual | UTA.11104.EURCC |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | hepatocyte differentiation protocol 1 | None | None | None |
| Pipeline info and software versions | |
| Sample notes | Treatment M1 denotes HLCs differentiated with method 1 (Si-Tayeb et al. 2010) and M2 uses method 2 (Hay et al. 2008), detailed further in supplementary methods |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 2 |
| Sample NRO score | 2 |
| Raw read length | 50 |
| Read depth after trimming | 19,457,307 |
| Duplication proportion | 0.42724 |
| Proportion reads mapped | 0.9166 |
| Exon/intron ratio | 3.50086 |
| Unique read proportion | 0.59832 |
| Total # Tfit bidirectionals | 23210 |
| # Promoter Tfit bidirectionals | 8833 |
| # Intronic Tfit bidirectionals | 9971 |
| # Intergenic Tfit bidirectionals | 4127 |
| Total # dREG bidirectionals | 13078 |
| # Promoter dREG bidirectionals | 5967 |
| # Intronic dREG bidirectionals | 5151 |
| # Intergenic dREG bidirectionals | 2169 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |