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SRR1916553 Sample ID 662
| Paper identifier | Elkon2015myc |
| SRP accession | SRP056201 |
| GEO accession | GSE66928 |
| Samples | SRR1916553 |
| QC score | 3 |
| 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 | U2OS |
| Clone/Individual | |
| Strain | |
| Genotype | dox-inducible Myc (stable) |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | doxycycline | -5 hr | 0 hr | 5 hr |
| Pipeline info and software versions | |
| Sample notes | Poor methods: assuming "mock treatment" means water and that the construct is stably integrated, but neither explicitly stated |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 3 |
| Sample NRO score | 1 |
| Raw read length | 51 |
| Read depth after trimming | 121,279,332 |
| Duplication proportion | 0.74534 |
| Proportion reads mapped | 0.9546 |
| Exon/intron ratio | 1.75 |
| Unique read proportion | 0.4024 |
| Total # Tfit bidirectionals | 46235 |
| # Promoter Tfit bidirectionals | 13627 |
| # Intronic Tfit bidirectionals | 19600 |
| # Intergenic Tfit bidirectionals | 11745 |
| Total # dREG bidirectionals | 33024 |
| # Promoter dREG bidirectionals | 8431 |
| # Intronic dREG bidirectionals | 13274 |
| # Intergenic dREG bidirectionals | 10610 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |