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SRR7413442 Sample ID 999
| Paper identifier | Hou2019paf1c |
| SRP accession | SRP151141 |
| GEO accession | GSE116169 |
| Samples | SRR7413442 |
| QC score | 3 |
| Replicate | 2 |
| Protocol | PRO-seq |
| Library prep | ligation |
| Spike-in | None |
| Single/Paired end | paired |
| Raw strandedness | read1 forward |
| Reverse complemented? | True |
| Mapped strandedness | read1 forward |
| Timecourse | True |
| Control/Experimental | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 66 Mb |
| Stranded gene read counts | TXT file | 909 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 1 Mb |
| dREG bidirectional regions | BED file | 545 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | cell line |
| Cell type | C2C12 |
| Clone/Individual | |
| Strain | |
| Genotype | Paf1 -/-; dox-inducible Paf1 exogenous (stable) |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | DRB (100 microM) | -30 min | 0 min | 30 min |
| treatment | doxycycline (1 microg/mL) | -3 day | 0 day | 3 day |
| Pipeline info and software versions | |
| Sample notes | cells either maintained in dox for whole experiment or withdrawn, set -3 days as start of experiment for both conditions |
| Analysis notes |
| Sample QC score | 3 |
| Sample NRO score | 2 |
| Raw read length | 40 |
| Read depth after trimming | 27,137,172 |
| Duplication proportion | 0.60476 |
| Proportion reads mapped | 0.7462 |
| Exon/intron ratio | 4.54545 |
| Unique read proportion | 0.30521 |
| Total # Tfit bidirectionals | 14048 |
| # Promoter Tfit bidirectionals | 5589 |
| # Intronic Tfit bidirectionals | 4841 |
| # Intergenic Tfit bidirectionals | 1412 |
| Total # dREG bidirectionals | 12612 |
| # Promoter dREG bidirectionals | 5343 |
| # Intronic dREG bidirectionals | 3487 |
| # Intergenic dREG bidirectionals | 2021 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |