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SRR3619367 Sample ID 2529
| Paper identifier | Vian2018energetics |
| SRP accession | SRP075985 |
| GEO accession | GSE82144 |
| Samples | SRR3619367 |
| QC score | 3 |
| Replicate | 1 |
| Protocol | GRO-seq |
| Library prep | circularization |
| Spike-in | None |
| Single/Paired end | single |
| Raw strandedness | forward |
| Reverse complemented? | False |
| Mapped strandedness | forward |
| Timecourse | False |
| Control/Experimental | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 333 Mb |
| Stranded gene read counts | TXT file | 928 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 2 Mb |
| dREG bidirectional regions | BED file | 1 Mb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | splenic B cell |
| Clone/Individual | |
| Strain | |
| Genotype | Myc fl/fl; tamoxifen-inducible Cre/+ |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | anti-CD180 (500 ng/mL) | -3 hr | 0 hr | 3 hr |
| treatment | hydroxytamoxifen | None | None | None |
| treatment | interleukin-4 (2.5 ng/mL) | -3 hr | 0 hr | 3 hr |
| treatment | lipopolysaccharide (50 microg/mL) | -3 hr | 0 hr | 3 hr |
| Pipeline info and software versions | |
| Sample notes | Mice treated with 1mg/mouse tamoxifen at 4, 3 and 1 day before sacrifice; Poor description of cells and treatment methods |
| Analysis notes |
| Sample QC score | 3 |
| Sample NRO score | 2 |
| Raw read length | 50 |
| Read depth after trimming | 196,649,519 |
| Duplication proportion | 0.65764 |
| Proportion reads mapped | 0.795 |
| Exon/intron ratio | 4.07568 |
| Unique read proportion | 0.56229 |
| Total # Tfit bidirectionals | 24284 |
| # Promoter Tfit bidirectionals | 11178 |
| # Intronic Tfit bidirectionals | 6573 |
| # Intergenic Tfit bidirectionals | 4630 |
| Total # dREG bidirectionals | 29771 |
| # Promoter dREG bidirectionals | 5438 |
| # Intronic dREG bidirectionals | 12260 |
| # Intergenic dREG bidirectionals | 9396 |
| Part of Tfit master merge? | False |
| Part of dREG master merge? | False |