Tutorial
1. How can I perform transposable element enrichment analysis for my gene list?
PlanTEnrichment offers a simple yet functional user interface for the enrichment analysis.
Just simply paste your gene list and define other parameters then submit your job.
Getting enrichment results may take up to minute(s) depending on server workload and total number of genes in your list.
2. How can I manage my search results?
Enrichment analysis results are provided in a searchable and sortable table.
They are also downloadable as tab-delimited text file and portable network graphics formats.
3. Which genome assemblies do we use for the identication of co-localized gene-repeat element pairs?
We made use of the following genome assemblies while constructing our co-localization database tables:
| # | Species | Assembly |
|---|---|---|
| 1 | Arabidopsis thaliana | TAIR10 |
| 2 | Brachypodium distachyon | v1.0 |
| 3 | Glycine max | V1.0 |
| 4 | Hordeum vulgare | ASM32608v1 |
| 5 | Medicago truncatula | MedtrA17_4.0 |
| 6 | Oryza sativa | IRGSP-1.0 |
| 7 | Populus trichocarpa | JGI2.0 |
| 8 | Solanum lycopersicum | SL2.50 |
| 9 | Sorghum bicolor | Sorbi1 |
| 10 | Triticum aestivum | TGACv1 |
| 11 | Zea mays | AGPv4 |