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SRR6128875 Sample ID 2501
| Paper identifier | Trizzino2018tumor |
| SRP accession | SRP119318 |
| GEO accession | GSE104545 |
| Samples | SRR6128875 |
| QC score | 4 |
| Replicate | 1 |
| 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 | |
| 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 | RMG1 |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct | dox-inducible shRNA Arid1A |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | doxycycline (2 microg/mL) | -3 day | 0 day | 3 day |
| Pipeline info and software versions | |
| Sample notes | |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 4 |
| Sample NRO score | 2 |
| Raw read length | 76 |
| Read depth after trimming | 118,572,449 |
| Duplication proportion | 0.83655 |
| Proportion reads mapped | 0.4367 |
| Exon/intron ratio | 4.69286 |
| Unique read proportion | 0.20563 |
| Total # Tfit bidirectionals | 17891 |
| # Promoter Tfit bidirectionals | 4738 |
| # Intronic Tfit bidirectionals | 8416 |
| # Intergenic Tfit bidirectionals | 3455 |
| Total # dREG bidirectionals | 10383 |
| # Promoter dREG bidirectionals | 3561 |
| # Intronic dREG bidirectionals | 4582 |
| # Intergenic dREG bidirectionals | 2377 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |