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SRR3647034 Sample ID 959
| Paper identifier | Hetzel2016nascent |
| SRP accession | SRP076266 |
| GEO accession | GSE83108 |
| Samples | SRR3647034 |
| QC score | 4 |
| 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? | True |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 26 Mb |
| Organism | A. thaliana |
| Sample type | tissue |
| Cell type | seed |
| Clone/Individual | |
| Strain | Col-0 |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| no treatment | None | None | None |
| Pipeline info and software versions | |
| Sample notes | Co-first author with Duttke.Plates were placed at 4 degrees C for 3 d for vernalization and then placed in growth chambers with 24 h of light at 22degrees C for 6 d before tissue collection. |
| Analysis notes |
| Sample QC score | 4 |
| Sample NRO score | 1 |
| Raw read length | 75 |
| Read depth after trimming | 44,622,866 |
| Duplication proportion | 0.83179 |
| Proportion reads mapped | 0.6138 |
| Exon/intron ratio | 1.4284 |
| Unique read proportion | 0.20296 |
| 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 |