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SRR13208368 Sample ID 941
| Paper identifier | Harman2021invivo |
| SRP accession | SRP296794 |
| GEO accession | GSE162756 |
| Samples | SRR13208368 |
| QC score | 1 |
| 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 | 69 Mb |
| Stranded gene read counts | TXT file | 916 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 2 Mb |
| dREG bidirectional regions | BED file | 689 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 12377 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 | 1 |
| Sample NRO score | 1 |
| Raw read length | 50 |
| Read depth after trimming | 30,228,500 |
| Duplication proportion | 0.34314 |
| Proportion reads mapped | 0.5591 |
| Exon/intron ratio | 2.8976 |
| Unique read proportion | 0.71449 |
| Total # Tfit bidirectionals | 25129 |
| # Promoter Tfit bidirectionals | 9386 |
| # Intronic Tfit bidirectionals | 9637 |
| # Intergenic Tfit bidirectionals | 3514 |
| Total # dREG bidirectionals | 15712 |
| # Promoter dREG bidirectionals | 5271 |
| # Intronic dREG bidirectionals | 6025 |
| # Intergenic dREG bidirectionals | 2466 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |