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SRR10439773 Sample ID 2809
| Paper identifier | Zhang2020bcatenin |
| SRP accession | SRP229740 |
| GEO accession | GSE140340 |
| Samples | SRR10439773 |
| QC score | 5 |
| Replicate | 2 |
| Protocol | GRO-seq |
| Library prep | circularization |
| 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 | 12 Mb |
| Stranded gene read counts | TXT file | 893 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 84 Kb |
| dREG bidirectional regions | BED file | 2 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | cell line |
| Cell type | ESC |
| Clone/Individual | |
| Strain | |
| Genotype | Gsk3 -/- |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| no treatment | None | None | None |
| Pipeline info and software versions | |
| Sample notes | Not much library prep info, but mentions polyA tailing reads |
| Analysis notes |
| Sample QC score | 5 |
| Sample NRO score | 1 |
| Raw read length | 150 |
| Read depth after trimming | 17,964,978 |
| Duplication proportion | 0.63005 |
| Proportion reads mapped | 0.0696 |
| Exon/intron ratio | 1.79787 |
| Unique read proportion | 0.21876 |
| Total # Tfit bidirectionals | 960 |
| # Promoter Tfit bidirectionals | 290 |
| # Intronic Tfit bidirectionals | 235 |
| # Intergenic Tfit bidirectionals | 200 |
| Total # dREG bidirectionals | 56 |
| # Promoter dREG bidirectionals | 6 |
| # Intronic dREG bidirectionals | 20 |
| # Intergenic dREG bidirectionals | 29 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |