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SRR9961460 Sample ID 2801
| Paper identifier | Zhang2019fundamental |
| SRP accession | SRP193758 |
| GEO accession | GSE130266 |
| Samples | SRR9961460 |
| QC score | 2 |
| Replicate | 3 |
| Protocol | GRO-seq |
| Library prep | ligation |
| 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 | 139 Mb |
| Stranded gene read counts | TXT file | 922 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 4 Mb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | cell line |
| Cell type | CH12F3 |
| Clone/Individual | |
| Strain | |
| Genotype | CH +/-; Aid -/-; I-alpha -/- |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| no treatment | None | None | None |
| Pipeline info and software versions | |
| Sample notes | CH +/-: KO of heavy chain locus non-productive allele |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 2 |
| Sample NRO score | 3 |
| Raw read length | 76 |
| Read depth after trimming | 28,029,765 |
| Duplication proportion | 0.50378 |
| Proportion reads mapped | 0.8021 |
| Exon/intron ratio | 1.62401 |
| Unique read proportion | 0.66429 |
| Total # Tfit bidirectionals | 44932 |
| # Promoter Tfit bidirectionals | 1440 |
| # Intronic Tfit bidirectionals | 29427 |
| # Intergenic Tfit bidirectionals | 10693 |
| Total # dREG bidirectionals | None |
| # Promoter dREG bidirectionals | None |
| # Intronic dREG bidirectionals | None |
| # Intergenic dREG bidirectionals | None |
| Part of Tfit master merge? | False |
| Part of dREG master merge? | False |