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SRR915731 Sample ID 1431
| Paper identifier | Le2013mapping |
| SRP accession | SRP026204 |
| GEO accession | GSE48159 |
| Samples | SRR915731 |
| QC score | 2 |
| Replicate | 1 |
| Protocol | GRO-seq |
| Library prep | ligation |
| Spike-in | None |
| Single/Paired end | single |
| Raw strandedness | forward |
| Reverse complemented? | False |
| Mapped strandedness | forward |
| Timecourse | False |
| Control/Experimental | control |
| Wildtype & Untreated? | False |
| 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 | H. sapiens |
| Sample type | cell line |
| Cell type | MCF7 |
| Clone/Individual | clone C4-12 |
| Strain | |
| Genotype | ER-beta flag (stable) |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| vehicle | ethanol | -1 hr | 0 hr | 1 hr |
| Pipeline info and software versions | |
| Sample notes | MCF7 C4-12 clonal line has been propagated to lose expression of ERalpha (not sure if specific mutations or epigenetically) |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 2 |
| Sample NRO score | 1 |
| Raw read length | 39 |
| Read depth after trimming | 22,691,334 |
| Duplication proportion | 0.60813 |
| Proportion reads mapped | 0.7178 |
| Exon/intron ratio | 2.14416 |
| Unique read proportion | 0.47905 |
| Total # Tfit bidirectionals | 23158 |
| # Promoter Tfit bidirectionals | 11620 |
| # Intronic Tfit bidirectionals | 8972 |
| # Intergenic Tfit bidirectionals | 1867 |
| Total # dREG bidirectionals | 12018 |
| # Promoter dREG bidirectionals | 7513 |
| # Intronic dREG bidirectionals | 3277 |
| # Intergenic dREG bidirectionals | 1270 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |