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SRZ6427123 Sample ID 462
| Paper identifier | Chen2018rna |
| SRP accession | SRP099055 |
| GEO accession | GSE94662 |
| Samples | SRR6427123 |
| SRR6427124 |
| QC score | 4 |
| 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 | 22 Mb |
| Stranded gene read counts | TXT file | 903 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 381 Kb |
| dREG bidirectional regions | BED file | 110 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | splenic B cell |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct | shRNA Rod1 |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | lipopolysaccharide (5 microg/mL) | -3 day | 0 day | 3 day |
| Pipeline info and software versions | |
| Sample notes | Biological replicates clearly labeled, assumed two runs per bio rep were technical replicates |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 4 |
| Sample NRO score | 1 |
| Raw read length | 52 |
| Read depth after trimming | 54,637,484 |
| Duplication proportion | 0.93043 |
| Proportion reads mapped | 0.6047 |
| Exon/intron ratio | 1.87903 |
| Unique read proportion | 0.08366 |
| Total # Tfit bidirectionals | 4560 |
| # Promoter Tfit bidirectionals | 1626 |
| # Intronic Tfit bidirectionals | 1300 |
| # Intergenic Tfit bidirectionals | 85 |
| Total # dREG bidirectionals | 2560 |
| # Promoter dREG bidirectionals | 1207 |
| # Intronic dREG bidirectionals | 566 |
| # Intergenic dREG bidirectionals | 475 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |