<![CDATA[BOL: Related items]]> https://bioinformaticsonline.com/related/43319?offset=130 https://bioinformaticsonline.com/bookmarks/view/38055/ancestral-genomes-a-resource-for-reconstructed-ancestral-genes-and-genomes-across-the-tree-of-life Fri, 02 Nov 2018 08:16:27 -0500 https://bioinformaticsonline.com/bookmarks/view/38055/ancestral-genomes-a-resource-for-reconstructed-ancestral-genes-and-genomes-across-the-tree-of-life <![CDATA[Ancestral Genomes: a resource for reconstructed ancestral genes and genomes across the tree of life]]>  Ancestral Genomes (http://ancestralgenomes.org) is a resource for comprehensive reconstructions of these ‘fossil genomes’. Comprehensive sets of protein-coding genes have been reconstructed for 78 genomes of now-extinct species that were the common ancestors of extant species from across the tree of life. 

Address of the bookmark: http://ancestralgenomes.org/

]]> Abhimanyu Singh https://bioinformaticsonline.com/bookmarks/view/44513/mike-an-ultrafast-assembly-and-alignment-free-approach-for-phylogenetic-tree-construction Mon, 08 Apr 2024 06:19:52 -0500 https://bioinformaticsonline.com/bookmarks/view/44513/mike-an-ultrafast-assembly-and-alignment-free-approach-for-phylogenetic-tree-construction <![CDATA[MIKE: an ultrafast, assembly-, and alignment-free approach for phylogenetic tree construction]]> MIKE (MinHash-based k-mer algorithm). This algorithm is designed for the swift calculation of the Jaccard coefficient directly from raw sequencing reads and enables the construction of phylogenetic trees based on the resultant Jaccard coefficient. Simulation results highlight the superior speed of MIKE compared to existing state-of-the-art methods. We used MIKE to reconstruct a phylogenetic tree, incorporating 238 yeast, 303 Zea, 141 Ficus, 67 Oryza, and 43 Saccharum spontaneum samples. MIKE demonstrated accurate performance across varying evolutionary scales, reproductive modes, and ploidy levels, proving itself as a powerful tool for phylogenetic tree construction.

Address of the bookmark: https://github.com/Argonum-Clever2/mike

]]> Abhi