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SRR8706169 Sample ID 2145
| Paper identifier | Santoriello2020rna |
| SRP accession | SRP188036 |
| GEO accession | GSE128081 |
| Samples | SRR8706169 |
| QC score | 3 |
| Replicate | 1 |
| Protocol | PRO-seq |
| Library prep | not noted in GEO or publication |
| Spike-in | D. melanogaster |
| Single/Paired end | paired |
| Raw strandedness | read1 reverse |
| Reverse complemented? | False |
| Mapped strandedness | read1 reverse |
| 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 | A375 |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | A771726 (25 microM) | -24 hr | 0 hr | 1 day |
| treatment | nucleotides | -24 hr | 0 hr | 1 day |
| Pipeline info and software versions | |
| Sample notes | No protocol or library prep details in paper or GEO, no details on "nucleotides" treatment - poorly written methods |
| Analysis notes |
| Sample QC score | 3 |
| Sample NRO score | 2 |
| Raw read length | 42 |
| Read depth after trimming | 14,345,527 |
| Duplication proportion | 0.16216 |
| Proportion reads mapped | 0.7115 |
| Exon/intron ratio | 4.86927 |
| Unique read proportion | 0.74993 |
| Total # Tfit bidirectionals | 26834 |
| # Promoter Tfit bidirectionals | 9890 |
| # Intronic Tfit bidirectionals | 10988 |
| # Intergenic Tfit bidirectionals | 5917 |
| Total # dREG bidirectionals | 18205 |
| # Promoter dREG bidirectionals | 8090 |
| # Intronic dREG bidirectionals | 6261 |
| # Intergenic dREG bidirectionals | 3741 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |