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SRR574830 Sample ID 2297
| Paper identifier | Sigova2013divergent |
| SRP accession | SRP015819 |
| GEO accession | GSE41009 |
| Samples | SRR574830 |
| QC score | 1 |
| Replicate | 2 |
| Protocol | GRO-seq |
| Library prep | ligation |
| Spike-in | None |
| Single/Paired end | single |
| Raw strandedness | forward |
| Reverse complemented? | False |
| Mapped strandedness | forward |
| Timecourse | True |
| 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 | H1 |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | RPMI/B27 | -25 hr | 0 hr | 25 hr |
| treatment | activin (50 ng/mL) | -1 hr | 0 hr | 1 hr |
| Pipeline info and software versions | |
| Sample notes | All cells maintained in mTESR1 medium until transferred to RPMI |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 1 |
| Sample NRO score | 2 |
| Raw read length | 40 |
| Read depth after trimming | 113,896,447 |
| Duplication proportion | 0.48171 |
| Proportion reads mapped | 0.5016 |
| Exon/intron ratio | 3.10348 |
| Unique read proportion | 0.65346 |
| Total # Tfit bidirectionals | 51195 |
| # Promoter Tfit bidirectionals | 17965 |
| # Intronic Tfit bidirectionals | 20649 |
| # Intergenic Tfit bidirectionals | 11335 |
| Total # dREG bidirectionals | 34533 |
| # Promoter dREG bidirectionals | 8890 |
| # Intronic dREG bidirectionals | 13522 |
| # Intergenic dREG bidirectionals | 9902 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |