Explore DBNascent | browse or search sample metadata
Search
Advanced Search
All Samples
Samples By Dataset
Sample Details
SRR1772450 Sample ID 1014
| Paper identifier | Illingworth2016polycomb |
| SRP accession | SRP052827 |
| GEO accession | GSE65288 |
| Samples | SRR1772450 |
| QC score | 4 |
| Replicate | 2 |
| 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 | control |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 21 Mb |
| Stranded gene read counts | TXT file | 908 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 909 Kb |
| dREG bidirectional regions | BED file | 226 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | cell line |
| Cell type | ESC |
| Clone/Individual | HV1.5 |
| Strain | |
| Genotype | |
| Construct | Hhex-Venus reporter |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | cell sorting HV- | None | None | None |
| Pipeline info and software versions | |
| Sample notes | HV- epiblast-primed cells (Epi-primed); Cells were stained with anti-SSEA1 antibodies and sorted for Venus fluorescence prior to RNA extraction |
| Analysis notes | Unstranded, a little strange-looking |
| Sample QC score | 4 |
| Sample NRO score | 4 |
| Raw read length | 42 |
| Read depth after trimming | 37,487,819 |
| Duplication proportion | 0.9283 |
| Proportion reads mapped | 0.5609 |
| Exon/intron ratio | 8.08333 |
| Unique read proportion | 0.11422 |
| Total # Tfit bidirectionals | 10443 |
| # Promoter Tfit bidirectionals | 823 |
| # Intronic Tfit bidirectionals | 3825 |
| # Intergenic Tfit bidirectionals | 1035 |
| Total # dREG bidirectionals | 5237 |
| # Promoter dREG bidirectionals | 564 |
| # Intronic dREG bidirectionals | 1420 |
| # Intergenic dREG bidirectionals | 1515 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |