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SRR6145792 Sample ID 2502
| Paper identifier | Trizzino2018tumor |
| SRP accession | SRP119318 |
| GEO accession | GSE104545 |
| Samples | SRR6145792 |
| QC score | 5 |
| 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 | control |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 23 Mb |
| Stranded gene read counts | TXT file | 1 Mb |
| Unstranded bidirectional read counts | TXT file | 21 Mb |
| Tfit bidirectional regions | BED file | 30 Kb |
| dREG bidirectional regions | BED file | 14 Kb |
| All data files | ZIP archive | |
| Organism | H. sapiens |
| Sample type | cell line |
| Cell type | RMG1 |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct | dox-inducible shRNA Arid1A |
| Condition type | Treatment | Start time | End time | Duration |
| no treatment | None | None | None |
| Pipeline info and software versions | |
| Sample notes | Ctrl condition not crystal clear, but based on WB data, seems Ctrl is D0 of dox treatment |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 5 |
| Sample NRO score | 3 |
| Raw read length | 76 |
| Read depth after trimming | 17,237,468 |
| Duplication proportion | 0.65925 |
| Proportion reads mapped | 0.2162 |
| Exon/intron ratio | 3.0 |
| Unique read proportion | 0.33402 |
| Total # Tfit bidirectionals | 340 |
| # Promoter Tfit bidirectionals | 43 |
| # Intronic Tfit bidirectionals | 79 |
| # Intergenic Tfit bidirectionals | 162 |
| Total # dREG bidirectionals | 322 |
| # Promoter dREG bidirectionals | 40 |
| # Intronic dREG bidirectionals | 44 |
| # Intergenic dREG bidirectionals | 165 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |