ArticleNucleic acids research2010
SoRT2: a tool for sorting genomes and reconstructing phylogenetic trees by reversals, generalized transpositions and translocations.
Article in Nucleic acids research, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Multi-omics Analysis of Gut Microbiota and Metabolites in Rats With Irritable Bowel Syndrome.Frontiers in cellular and infection microbiology · 2019Article
- A New Algorithm for Identifying Genome Rearrangements in the Mammalian Evolution.Frontiers in genetics · 2019Article
- Multiple Lines of Evidence from Mitochondrial Genomes Resolve Phylogenetic Relationships of Parasitic Wasps in Braconidae.Genome biology and evolution · 2016Article
- CAR: contig assembly of prokaryotic draft genomes using rearrangements.BMC bioinformatics · 2014Article
- Metabolic classification of microbial genomes using functional probes.BMC genomics · 2012Article
- Sorting permutations by cut-circularize-linearize-and-paste operations.BMC genomics · 2011Article
Corrections and comments
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Authors and funding
4 authors.
Funding
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Abstract
SoRT(2) is a web server that allows the user to perform genome rearrangement analysis involving reversals, generalized transpositions and translocations (including fusions and fissions), and infer phylogenetic trees of genomes being considered based on their pairwise genome rearrangement distances. It takes as input two or more linear/circular multi-chromosomal gene (or synteny block) orders in FASTA-like format. When the input is two genomes, SoRT(2) will quickly calculate their rearrangement distance, as well as a corresponding optimal scenario by highlighting the genes involved in each rearrangement operation. In the case of multiple genomes, SoRT(2) will also construct phylogenetic trees of these genomes based on a matrix of their pairwise rearrangement distances using distance-based approaches, such as neighbor-joining (NJ), unweighted pair group method with arithmetic mean (UPGMA) and Fitch-Margoliash (FM) methods. In addition, if the function of computing jackknife support values is selected, SoRT(2) will further perform the jackknife analysis to evaluate statistical reliability of the constructed NJ, UPGMA and FM trees. SoRT(2) is available online at http://bioalgorithm.life.nctu.edu.tw/SORT2/.
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