Insights into Ciliary Genes and Evolution from Multi-Level Phylogenetic Profiling
Sign Up to like & getrecommendations! Published in 2017 at "Molecular Biology and Evolution"
DOI: 10.1093/molbev/msx146
Abstract: Abstract Cilia (flagella) are important eukaryotic organelles, present in the Last Eukaryotic Common Ancestor, and are involved in cell motility and integration of extracellular signals. Ciliary dysfunction causes a class of genetic diseases, known as… read more here.
Keywords: ciliary genes; evolution; phylogenetic profiling; multi level ... See more keywords
PPNet: Identifying Functional Association Networks by Phylogenetic Profiling of Prokaryotic Genomes
Sign Up to like & getrecommendations! Published in 2023 at "Microbiology Spectrum"
DOI: 10.1128/spectrum.03871-22
Abstract: This study developed PPNet, the first tool that can be used to infer large-scale bacterial functional association networks of a single species. PPNet includes a method for assigning the uniqueness of a bacterial strain using… read more here.
Keywords: ppnet; functional association; average nucleotide; phylogenetic profiling ... See more keywords
Scalable phylogenetic profiling using MinHash uncovers likely eukaryotic sexual reproduction genes
Sign Up to like & getrecommendations! Published in 2020 at "PLoS Computational Biology"
DOI: 10.1371/journal.pcbi.1007553
Abstract: Phylogenetic profiling is a computational method to predict genes involved in the same biological process by identifying protein families which tend to be jointly lost or retained across the tree of life. Phylogenetic profiling has… read more here.
Keywords: profiling; phylogenetic profiling; sexual reproduction; profiling using ... See more keywords
Phylogenetic profiling in eukaryotes: The effect of species, orthologous group, and interactome selection on protein interaction prediction
Sign Up to like & getrecommendations! Published in 2022 at "PLoS ONE"
DOI: 10.1371/journal.pone.0251833
Abstract: Phylogenetic profiling in eukaryotes is of continued interest to study and predict the functional relationships between proteins. This interest is likely driven by the increased number of available diverse genomes and computational methods to infer… read more here.
Keywords: performance; interaction; prediction; effect ... See more keywords
Phylogenetic profiling resolves early emergence of PRC2 and illuminates its functional core.
Sign Up to like & getrecommendations! Published in 2022 at "Life science alliance"
DOI: 10.26508/lsa.202101271
Abstract: Polycomb repressive complex 2 (PRC2) is involved in maintaining transcriptionally silent chromatin states through methylating lysine 27 of histone H3 by the catalytic subunit enhancer of zeste [E(z)]. Here, we report the diversity of PRC2… read more here.
Keywords: prc2; functional core; core; emergence prc2 ... See more keywords