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SRZ1745529 Sample ID 705
| Paper identifier | Estaras2015smad |
| SRP accession | SRP051788 |
| GEO accession | GSE64758 |
| Samples | SRR1745529 |
| SRR1745530 |
| QC score | 2 |
| Replicate | 1 |
| Protocol | GRO-seq |
| Library prep | ligation |
| 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 | ESC |
| Clone/Individual | H1 |
| Strain | |
| Genotype | |
| Construct | siRNA Yap1 |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | Wnt3a (200 ng/mL) | -6 hr | 0 hr | 6 hr |
| treatment | activin A (100 ng/mL) | -6 hr | 0 hr | 6 hr |
| Pipeline info and software versions | |
| Sample notes | Labeled (+/- chains) - runs seem to be split in two by lane, thus technical replicates |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 2 |
| Sample NRO score | 1 |
| Raw read length | 51 |
| Read depth after trimming | 43,350,947 |
| Duplication proportion | 0.60389 |
| Proportion reads mapped | 0.7557 |
| Exon/intron ratio | 2.90308 |
| Unique read proportion | 0.44225 |
| Total # Tfit bidirectionals | 17833 |
| # Promoter Tfit bidirectionals | 5932 |
| # Intronic Tfit bidirectionals | 7970 |
| # Intergenic Tfit bidirectionals | 2895 |
| Total # dREG bidirectionals | 10723 |
| # Promoter dREG bidirectionals | 4546 |
| # Intronic dREG bidirectionals | 3932 |
| # Intergenic dREG bidirectionals | 2178 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |