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SRR7519714 Sample ID 2580
| Paper identifier | Viiri2019extensive |
| SRP accession | SRP153391 |
| GEO accession | GSE117086 |
| Samples | SRR7519714 |
| QC score | 2 |
| Replicate | 2 |
| 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 | 69 Mb |
| Stranded gene read counts | TXT file | 1 Mb |
| Unstranded bidirectional read counts | TXT file | 21 Mb |
| Tfit bidirectional regions | BED file | 987 Kb |
| dREG bidirectional regions | BED file | 357 Kb |
| All data files | ZIP archive | |
| Organism | H. sapiens |
| Sample type | cell line |
| Cell type | iPSC |
| Clone/Individual | UTA.10100.EURCC |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | hepatocyte differentiation protocol 2 | 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 | 1 |
| Raw read length | 51 |
| Read depth after trimming | 22,098,398 |
| Duplication proportion | 0.55269 |
| Proportion reads mapped | 0.8909 |
| Exon/intron ratio | 1.78319 |
| Unique read proportion | 0.61732 |
| Total # Tfit bidirectionals | 11276 |
| # Promoter Tfit bidirectionals | 3522 |
| # Intronic Tfit bidirectionals | 4815 |
| # Intergenic Tfit bidirectionals | 2322 |
| Total # dREG bidirectionals | 8298 |
| # Promoter dREG bidirectionals | 3852 |
| # Intronic dREG bidirectionals | 3242 |
| # Intergenic dREG bidirectionals | 1423 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |