Thats a unique idea.You should consider the following idea to enhance your idea so that it would impact uniquely: Ortholog detection is essential in functional annotation of genomes, with applications to phylogenetic tree construction, prediction of protein–protein interaction and other bioinformatics tasks.  present here the PHOG b server employing a novel algorithm to identify orthologs based on phylogenetic analysis. Results on a benchmark dataset from the TreeFam-A manually curated orthology database show that PHOG provides a combination of high recall and precision competitive with both InParanoid and OrthoMCL, and allows users to target different taxonomic distances and precision levels through the use of tree-distance thresholds. For instance, OrthoMCL-DB achieved 76% recall and 66% precision on this dataset; at a slightly higher precision (68%) PHOG achieves 10% higher recall (86%). InParanoid achieved 87% recall at 24% precision on this dataset, while a PHOG variant designed for high recall achieves 88% recall at 61% precision, increasing precision by 37% over InParanoid. PHOG is based on pre-computed trees in the PhyloFacts resource, and contains over 366 K orthology groups with a minimum of three species. Predicted orthologs are linked to GO annotations, pathway information and biological literature. The PHOG b server is available at http://phylofacts.berkeley.edu/orthologs/.
['Ruchira S. Datta', 'Christopher Meacham', 'Bushra Samad', 'Christoph Neyer', 'Kimmen Sjölander']
I am writing a research paper on a idea Berkeley PHOG: PhyloFacts orthology group prediction web server
[{"from": "human", "value": "I am writing a research paper on a idea Berkeley PHOG: PhyloFacts orthology group prediction web server"}, {"from": "gpt", "value": "Thats a unique idea.You should consider the following idea to enhance your idea so that it would impact uniquely: Ortholog detection is essential in functional annotation of genomes, with applications to phylogenetic tree construction, prediction of protein\u2013protein interaction and other bioinformatics tasks.  present here the PHOG b server employing a novel algorithm to identify orthologs based on phylogenetic analysis. Results on a benchmark dataset from the TreeFam-A manually curated orthology database show that PHOG provides a combination of high recall and precision competitive with both InParanoid and OrthoMCL, and allows users to target different taxonomic distances and precision levels through the use of tree-distance thresholds. For instance, OrthoMCL-DB achieved 76% recall and 66% precision on this dataset; at a slightly higher precision (68%) PHOG achieves 10% higher recall (86%). InParanoid achieved 87% recall at 24% precision on this dataset, while a PHOG variant designed for high recall achieves 88% recall at 61% precision, increasing precision by 37% over InParanoid. PHOG is based on pre-computed trees in the PhyloFacts resource, and contains over 366 K orthology groups with a minimum of three species. Predicted orthologs are linked to GO annotations, pathway information and biological literature. The PHOG b server is available at http://phylofacts.berkeley.edu/orthologs/."}]