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SRR8950259 Sample ID 2784
| Paper identifier | Zhang2019fundamental |
| SRP accession | SRP193758 |
| GEO accession | GSE130266 |
| Samples | SRR8950259 |
| QC score | 1 |
| Replicate | 1 |
| 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 | 169 Mb |
| Stranded gene read counts | TXT file | 922 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 3 Mb |
| dREG bidirectional regions | BED file | 887 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | splenic B cell |
| Clone/Individual | |
| Strain | C57BL/6 |
| Genotype | Aid -/- |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | anti-CD40 (1 microg/mL) | -48 hr | 0 hr | 2 day |
| treatment | interleukin-4 (20 ng/mL) | -48 hr | 0 hr | 2 day |
| Pipeline info and software versions | |
| Sample notes | |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 1 |
| Sample NRO score | 1 |
| Raw read length | 76 |
| Read depth after trimming | 51,680,898 |
| Duplication proportion | 0.43109 |
| Proportion reads mapped | 0.6969 |
| Exon/intron ratio | 2.45807 |
| Unique read proportion | 0.60543 |
| Total # Tfit bidirectionals | 30789 |
| # Promoter Tfit bidirectionals | 8270 |
| # Intronic Tfit bidirectionals | 12326 |
| # Intergenic Tfit bidirectionals | 5686 |
| Total # dREG bidirectionals | 20332 |
| # Promoter dREG bidirectionals | 4666 |
| # Intronic dREG bidirectionals | 8222 |
| # Intergenic dREG bidirectionals | 4602 |
| Part of Tfit master merge? | False |
| Part of dREG master merge? | False |