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Nelly Sélem edited this page Mar 27, 2019 · 50 revisions

Welcome to the CORASON wiki!

CORASON-BGC

CORe Analysis of Syntenic Orthologs to prioritize Natural Product-Biosynthetic Gene Cluster

by Cruz-Morales Pablo and Sélem-Mojica Nelly

CORASON is a visual tool that searches for gene clusters similar to a given one, if these clusters have a genomic core, CORASON sorts them phylogenetically according to it. CORASON outputs are newick trees, a core functional report and SVG files, which among being scalable graphics, also allows to display metadata such as gene function and genome coordinates facilitating genomic analysis.

  • Usage
    Please consult Installation guide and Tutorial
  • Introduction
    Given a reference cluster CORASON helps you find similar clusters colouring them according to its identity percentage. Starting with a query protein sequence that belongs to a query-cluster CORASON will find on a Bacterial genome database, hit-clusters with an ortholog of the query-protein that in addition contains at least another sequence with an ortholog on the query-cluster. If exists a genomic core of hit-clusters its sequences will be concatenated and a phylogenetic tree will be constructed according to this aminoacid matrix, finally a report about enzyme core functionality will be provided.

EvoMining allows identification of potentially divergent sequences from an expanded enzyme family, evominig-hits can be processed by CORASON to identify variation on its cluster, so on perspective EvoMining and CORASON together can help to prioritize clusters that may be involved on chemical novelty.

Evomining

Previous CORASON work

Evomining is a functional phylogenomics method for identification of expanded, re-purposed enzyme families, with the potential to catalyse new conversions in natural product biosynthesis.

Previous work on genome mining

EvoMining: biosynthetic gene clusters allows discovery of arseno-organic metabolites
Evomining news

Reviews on genome Mining

Ziemert et al, June 2016
Marnix & Fischbach, 2015
[The Secondary Metabolite Bioinformatics Portal] (http://www.secondarymetabolites.org/mining/)

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