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SRR2518201 Sample ID 2401
| Paper identifier | Strikoudis2016regulation |
| SRP accession | SRP064201 |
| GEO accession | GSE73441 |
| Samples | SRR2518201 |
| QC score | 3 |
| Replicate | 3 |
| Protocol | GRO-seq |
| Library prep | ligation |
| Spike-in | None |
| Single/Paired end | single |
| Raw strandedness | reverse |
| Reverse complemented? | True |
| Mapped strandedness | forward |
| Timecourse | False |
| Control/Experimental | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 30 Mb |
| Stranded gene read counts | TXT file | 907 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 344 Kb |
| dREG bidirectional regions | BED file | 115 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | cell line |
| Cell type | ESC |
| Clone/Individual | KH2 |
| Strain | C57BL/6 x 129/Sv |
| Genotype | dox-inducible shRNA Phf5a (stable) |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | LIF (1000 U/mL) | None | None | None |
| treatment | doxycycline (2 microg/mL) | -3 day | 0 day | 3 day |
| Pipeline info and software versions | |
| Sample notes | LIF treatment maintains pluripotency |
| Analysis notes |
| Sample QC score | 3 |
| Sample NRO score | 2 |
| Raw read length | 51 |
| Read depth after trimming | 22,050,340 |
| Duplication proportion | 0.79623 |
| Proportion reads mapped | 0.755 |
| Exon/intron ratio | 4.16135 |
| Unique read proportion | 0.21764 |
| Total # Tfit bidirectionals | 4042 |
| # Promoter Tfit bidirectionals | 840 |
| # Intronic Tfit bidirectionals | 1754 |
| # Intergenic Tfit bidirectionals | 396 |
| Total # dREG bidirectionals | 2686 |
| # Promoter dREG bidirectionals | 448 |
| # Intronic dREG bidirectionals | 970 |
| # Intergenic dREG bidirectionals | 1029 |
| Part of Tfit master merge? | False |
| Part of dREG master merge? | False |