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SRR10486676 Sample ID 1935
| Paper identifier | Nguyen2020dichotomous |
| SRP accession | SRP230423 |
| GEO accession | GSE140573 |
| Samples | SRR10486676 |
| QC score | 5 |
| Replicate | 3 |
| 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 | 1 Mb |
| Stranded gene read counts | TXT file | 880 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| dREG bidirectional regions | BED file | 0 |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | bone marrow derived macrophage |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | lipopolysaccharide (5 ng/mL) | -4 hr | 0 hr | 4 hr |
| Pipeline info and software versions | |
| Sample notes | |
| Analysis notes | Almost no reads mapped; Poor quality libraries, many are mostly poly-A or unknown contamination |
| Sample QC score | 5 |
| Sample NRO score | 0 |
| Raw read length | 100 |
| Read depth after trimming | 58,469,761 |
| Duplication proportion | 0.11905 |
| Proportion reads mapped | 0.0001 |
| Exon/intron ratio | None |
| Unique read proportion | 0.02118 |
| Total # Tfit bidirectionals | None |
| # Promoter Tfit bidirectionals | None |
| # Intronic Tfit bidirectionals | None |
| # Intergenic Tfit bidirectionals | None |
| 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 |