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SRR1736065 Sample ID 1981
| Paper identifier | Nojima2015mammalian |
| SRP accession | SRP045447 |
| GEO accession | GSE60358 |
| Samples | SRR1736065 |
| QC score | 2 |
| Replicate | 1 |
| Protocol | NET-seq |
| Library prep | ligation |
| Spike-in | None |
| Single/Paired end | paired |
| Raw strandedness | read1 forward |
| Reverse complemented? | True |
| Mapped strandedness | read1 forward |
| Timecourse | False |
| Control/Experimental | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 160 Mb |
| Stranded gene read counts | TXT file | 1 Mb |
| Unstranded bidirectional read counts | TXT file | 21 Mb |
| Tfit bidirectional regions | BED file | 3 Mb |
| dREG bidirectional regions | BED file | 1 Mb |
| All data files | ZIP archive | |
| Organism | H. sapiens |
| Sample type | cell line |
| Cell type | HeLa |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct | siRNA Ptbp1 |
| Condition type | Treatment | Start time | End time | Duration |
| no treatment | None | None | None |
| Pipeline info and software versions | |
| Sample notes | mNET-seq with CMA603 PolII antibody |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 2 |
| Sample NRO score | 5 |
| Raw read length | 51 |
| Read depth after trimming | 51,717,552 |
| Duplication proportion | 0.53592 |
| Proportion reads mapped | 0.8965 |
| Exon/intron ratio | 10.8434 |
| Unique read proportion | 0.50511 |
| Total # Tfit bidirectionals | 36254 |
| # Promoter Tfit bidirectionals | 12725 |
| # Intronic Tfit bidirectionals | 14903 |
| # Intergenic Tfit bidirectionals | 5846 |
| Total # dREG bidirectionals | 24669 |
| # Promoter dREG bidirectionals | 6821 |
| # Intronic dREG bidirectionals | 11121 |
| # Intergenic dREG bidirectionals | 5273 |
| Part of Tfit master merge? | False |
| Part of dREG master merge? | False |