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Orthology Relations, Symbolic Ultrametrics, and Cographs
Journal of Mathematical Biology, 2013 Orthology detection is an important problem in comparative and evolutionary genomics and, consequently, a variety of orthology detection methods have been devised in recent years.
Marc Hellmuth +2 more
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Inferring Orthology and Paralogy [PDF]
Methods in Molecular Biology, 2012 The distinction between orthologs and paralogs, genes that started diverging by speciation versus duplication, is relevant in a wide range of contexts, most notably phylogenetic tree inference and protein function annotation. In this chapter, we provide an overview of the methods used to infer orthology and paralogy.
Adrian M Altenhoff, Christophe Dessimoz
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Probabilistic Orthology Analysis
Systematic Biology, 2009Orthology analysis aims at identifying orthologous genes and gene products from different organisms and, therefore, is a powerful tool in modern computational and experimental biology. Although reconciliation-based orthology methods are generally considered more accurate than distance-based ones, the traditional parsimony-based implementation of ...
Bengt Sennblad, Jens Lagergren
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Journal of Symbolic Logic, 1972
Since 1933, when Kolmogorov laid the foundations for probability and statistics as we know them today [1], it has been recognized that propositions asserting that such and such an event occurred as a consequence of the execution of a particular random experiment tend to band together and form a Boolean algebra.
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Since 1933, when Kolmogorov laid the foundations for probability and statistics as we know them today [1], it has been recognized that propositions asserting that such and such an event occurred as a consequence of the execution of a particular random experiment tend to band together and form a Boolean algebra.
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Some Properties of Orthologics
Studia Logica, 2005zbMATH Open Web Interface contents unavailable due to conflicting licenses.
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Axiomatization of an Orthologic of Indeterminacy
Journal of Philosophical LogiczbMATH Open Web Interface contents unavailable due to conflicting licenses.
Samuel C. Fletcher, David E. Taylor
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Ortholog Clustering on a Multipartite Graph
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2005We present a method for automatically extracting groups of orthologous genes from a large set of genomes by a new clustering algorithm on a weighted multipartite graph. The method assigns a score to an arbitrary subset of genes from multiple genomes to assess the orthologous relationships between genes in the subset.
Akshay Vashist +2 more
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Complete Characterization of Incorrect Orthology Assignments in Best Match Graphs
Journal of Mathematical Biology, 2021David Schaller +2 more
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Benchmarking Orthology Methods Using Phylogenetic Patterns Defined at the Base of Eukaryotes.
Briefings in Bioinformatics, 2021Berend Snel +2 more
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