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SRR7550994 Sample ID 1916
| Paper identifier | Nair2019phase |
| SRP accession | SRP154850 |
| GEO accession | GSE117494 |
| Samples | SRR7550994 |
| QC score | 2 |
| 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 | 102 Mb |
| Stranded gene read counts | TXT file | 914 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 2 Mb |
| dREG bidirectional regions | BED file | 626 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | cell line |
| Cell type | RAW264.7 |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | 2,5-hexanediol (8.5 percent) | -35 min | -5 min | 30 min |
| treatment | Kdo2-Lipid A (100 nM) | -5 min | 0 min | 5 min |
| Pipeline info and software versions | |
| Sample notes | Methods unclear in spots - treatments may not be accurate |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 2 |
| Sample NRO score | 2 |
| Raw read length | 100 |
| Read depth after trimming | 51,886,244 |
| Duplication proportion | 0.59024 |
| Proportion reads mapped | 0.7535 |
| Exon/intron ratio | 2.36488 |
| Unique read proportion | 0.52597 |
| Total # Tfit bidirectionals | 21898 |
| # Promoter Tfit bidirectionals | 4412 |
| # Intronic Tfit bidirectionals | 10094 |
| # Intergenic Tfit bidirectionals | 5220 |
| Total # dREG bidirectionals | 14396 |
| # Promoter dREG bidirectionals | 3176 |
| # Intronic dREG bidirectionals | 5655 |
| # Intergenic dREG bidirectionals | 4532 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |