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SRR7518320 Sample ID 2874
| Paper identifier | Zhu2018rna |
| SRP accession | SRP153346 |
| GEO accession | GSE117014 |
| Samples | SRR7518320 |
| QC score | 4 |
| Replicate | 2 |
| Protocol | NET-seq |
| Library prep | ligation |
| Spike-in | None |
| Single/Paired end | paired |
| Raw strandedness | read1 forward |
| Reverse complemented? | True |
| Mapped strandedness | read1 forward |
| Timecourse | False |
| Control/Experimental | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 11 Mb |
| Organism | A. thaliana |
| Sample type | tissue |
| Cell type | seedling |
| Clone/Individual | |
| Strain | Col-0 |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | flavopiridol (200 microM) | -1 hr | 0 hr | 1 hr |
| Pipeline info and software versions | |
| Sample notes | Antibody: CMA602; Ser2p |
| Analysis notes | did fastq-dump manually, force trimmed first 10 bp and bp 100+ prior to running pipeline, ran pipeline on trimmed fastqs (w/normal bbduk trimming); ran tech reps on pre-trimmed fastqs directly |
| Sample QC score | 4 |
| Sample NRO score | 1 |
| Raw read length | 91 |
| Read depth after trimming | 25,373,707 |
| Duplication proportion | 0.86622 |
| Proportion reads mapped | 0.3958 |
| Exon/intron ratio | 1.01506 |
| Unique read proportion | 0.114 |
| 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 |