Results 31 to 40 of about 28,177 (251)
BMC Bioinformatics, 2012 Background The concept of orthology is key to decoding evolutionary relationships among genes across different species using comparative genomics. QuartetS is a recently reported algorithm for large-scale orthology detection.
Yu Chenggang +3 more
doaj +1 more source
Nucleic Acids Res., 2018 eggNOG is a public database of orthology relationships, gene evolutionary histories and functional annotations. Here, we present version 5.0, featuring a major update of the underlying genome sets, which have been expanded to 4445 representative bacteria
J. Huerta-Cepas +11 more
semanticscholar +1 more source
Conserved orthology in termite chemosensory gene families
Frontiers in Ecology and Evolution, 2023 Termites are eusocial insects known to use a variety of pheromones in tasks necessary for maintenance of their societies. As such, olfaction and pheromone communication in termites has been an object of intense study; trail-following pheromones (TFPs ...
J. Johny +6 more
semanticscholar +1 more source
Genomics, Proteomics & Bioinformatics, 2017 Orthology relations can be used to transfer annotations from one gene (or protein) to another. Hence, detecting orthology relations has become an important task in the post-genomic era.
Soheil Jahangiri-Tazehkand +2 more
doaj +1 more source
OrthoFinder: phylogenetic orthology inference for comparative genomics
Genome Biology, 2019 Here, we present a major advance of the OrthoFinder method. This extends OrthoFinder’s high accuracy orthogroup inference to provide phylogenetic inference of orthologs, rooted gene trees, gene duplication events, the rooted species tree, and comparative
David M. Emms, S. Kelly
semanticscholar +1 more source
InParanoid-DIAMOND: faster orthology analysis with the InParanoid algorithm
Bioinform., 2022 AVAILABILITY Predicting orthologs, genes in different species having shared ancestry, is an important task in bioinformatics. Orthology prediction tools are required to make accurate and fast predictions, in order to analyze large amounts of data within ...
E. Persson, E. Sonnhammer
semanticscholar +1 more source
Systematic bacterialization of yeast genes identifies a near-universally swappable pathway
eLife, 2017 Eukaryotes and prokaryotes last shared a common ancestor ~2 billion years ago, and while many present-day genes in these lineages predate this divergence, the extent to which these genes still perform their ancestral functions is largely unknown. To test
Aashiq H Kachroo +6 more
doaj +1 more source
Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper
bioRxiv, 2016 Orthology assignment is ideally suited for functional inference. However, because predicting orthology is computationally intensive at large scale, and most pipelines relatively in accessible, less precise homology-based functional transfer is still the ...
J. Huerta-Cepas +6 more
semanticscholar +1 more source
Systematic errors in orthology inference and their effects on evolutionary analyses
iScience, 2021 Summary The availability of complete sets of genes from many organisms makes it possible to identify genes unique to (or lost from) certain clades. This information is used to reconstruct phylogenetic trees; identify genes involved in the evolution of ...
Paschalis Natsidis +3 more
semanticscholar +1 more source
Updates to HCOP: the HGNC comparison of orthology predictions tool
Briefings Bioinform., 2021 Multiple resources currently exist that predict orthologous relationships between genes. These resources differ both in the methodologies used and in the species they make predictions for.
Bethan Yates +3 more
semanticscholar +1 more source