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SRR13208369 Sample ID 942
| Paper identifier | Harman2021invivo |
| SRP accession | SRP296794 |
| GEO accession | GSE162756 |
| Samples | SRR13208369 |
| QC score | 2 |
| Replicate | 1 |
| Protocol | GRO-seq |
| Library prep | ligation |
| Spike-in | None |
| Single/Paired end | single |
| Raw strandedness | forward |
| Reverse complemented? | False |
| Mapped strandedness | forward |
| Timecourse | False |
| Control/Experimental | control |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 61 Mb |
| Stranded gene read counts | TXT file | 915 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 2 Mb |
| dREG bidirectional regions | BED file | 669 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | pro B cell |
| Clone/Individual | |
| Strain | |
| Genotype | Rag2 -/- |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| no treatment | None | None | None |
| Pipeline info and software versions | |
| Sample notes | Labeled GRO-seq, but no protocol details; labeled 12378 but no replicate details |
| Analysis notes | Previously in db until 4/19/2021 as Tagoh2020unpublished, scripts changed but all previous documentation reflects previous id |
| Sample QC score | 2 |
| Sample NRO score | 2 |
| Raw read length | 50 |
| Read depth after trimming | 29,606,309 |
| Duplication proportion | 0.37412 |
| Proportion reads mapped | 0.5076 |
| Exon/intron ratio | 3.21948 |
| Unique read proportion | 0.67938 |
| Total # Tfit bidirectionals | 24546 |
| # Promoter Tfit bidirectionals | 9236 |
| # Intronic Tfit bidirectionals | 9254 |
| # Intergenic Tfit bidirectionals | 3291 |
| Total # dREG bidirectionals | 15266 |
| # Promoter dREG bidirectionals | 5300 |
| # Intronic dREG bidirectionals | 5756 |
| # Intergenic dREG bidirectionals | 2244 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |