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SRR797534 Sample ID 1072
| Paper identifier | Ji2013sr |
| SRP accession | SRP020006 |
| GEO accession | GSE45517 |
| Samples | SRR797534 |
| 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 | control |
| Wildtype & Untreated? | True |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | |
| Stranded gene read counts | TXT file | |
| Unstranded bidirectional read counts | TXT file | |
| Tfit bidirectional regions | BED file | |
| dREG bidirectional regions | BED file | |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | MEF |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| no treatment | None | None | None |
| Pipeline info and software versions | |
| Sample notes | |
| Analysis notes | Poor quality libraries, Very sparse because libraries were almost entirely poly-As; Ran qc redo nextflow |
| Sample QC score | 4 |
| Sample NRO score | 1 |
| Raw read length | 36 |
| Read depth after trimming | 23,339,659 |
| Duplication proportion | 0.93607 |
| Proportion reads mapped | 0.5163 |
| Exon/intron ratio | 0.18637 |
| Unique read proportion | 0.06428 |
| Total # Tfit bidirectionals | 1146 |
| # Promoter Tfit bidirectionals | 670 |
| # Intronic Tfit bidirectionals | 321 |
| # Intergenic Tfit bidirectionals | 105 |
| Total # dREG bidirectionals | 455 |
| # Promoter dREG bidirectionals | 249 |
| # Intronic dREG bidirectionals | 89 |
| # Intergenic dREG bidirectionals | 100 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |