Different orthology inference algorithms generate similar predicted orthogroups among Brassicaceae species
Three algorithms-OrthoFinder, SonicParanoid, and Broccoli-are helpful for initial orthology predictions. Results produced using OrthNet were generally outliers but could still provide detailed information about gene colinearity. With our Brassicaceae dataset, slight discrepancies were found across the orthology inference algorithms, necessitating additional analyses such as tree inference to fine-tune results.
Authors
- Irene T. Liao (ORCID: https://orcid.org/0000-0002-2904-4117)
- Karen E. Sears (ORCID: https://orcid.org/0000-0001-9744-9602)
- Lachezar A. Nikolov (ORCID: https://orcid.org/0000-0003-1594-6416)
- Lena C. Hileman (ORCID: https://orcid.org/0000-0001-6116-666X)
Institutions
- University of Kansas (US)
- University of California, Los Angeles (US)
- Indiana University Bloomington (US)
Publication Details
- Journal
- Applications in Plant Sciences
- Published
- 2024-12-25
- DOI
- https://doi.org/10.1002/aps3.11627
- Citations
- 1
- Primary Topic
- Genomics and Phylogenetic Studies
- Type
- article
- Field-Weighted Citation Impact
- 0.23
Funders
- National Science Foundation