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SRR3194604 Sample ID 2004
| Paper identifier | Oittinen2017polycomb |
| SRP accession | SRP070950 |
| GEO accession | GSE78761 |
| Samples | SRR3194604 |
| QC score | 2 |
| 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? | True |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 48 Mb |
| Stranded gene read counts | TXT file | 912 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 1 Mb |
| dREG bidirectional regions | BED file | 483 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | intestinal organoid |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| no treatment | None | None | None |
| Pipeline info and software versions | |
| Sample notes | Batch replicate (two mice from same litter) |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 2 |
| Sample NRO score | 1 |
| Raw read length | 50 |
| Read depth after trimming | 20,787,993 |
| Duplication proportion | 0.58152 |
| Proportion reads mapped | 0.7669 |
| Exon/intron ratio | 2.4797 |
| Unique read proportion | 0.43819 |
| Total # Tfit bidirectionals | 14852 |
| # Promoter Tfit bidirectionals | 5666 |
| # Intronic Tfit bidirectionals | 5052 |
| # Intergenic Tfit bidirectionals | 2549 |
| Total # dREG bidirectionals | 11227 |
| # Promoter dREG bidirectionals | 5220 |
| # Intronic dREG bidirectionals | 3058 |
| # Intergenic dREG bidirectionals | 1887 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |