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CORASON-BGC tool
by Sélem-Mojica Nelly and Cruz-Morales Pablo
- Installation [Installation guide] (https://github.com/nselem/EvoDivMet/blob/master/README.md)
- Introduction
Given a reference cluster CORASON is developed to help you find similar cluster to it and sort them phylogenetically colouring them according to its identity percentage. If exists a genomic core on clusters found, tree will be constructed according to this concatenated matrix, also a Report about enzyme core functionallity will be provided.
[Evomining] (http://148.247.230.39/newevomining/new/evomining_web/index.html),
- Description CORASON outputs are SVG files, newick trees, and core functional report.
CORASON
CORASON will help you to find similar clusters to a given one. Starting with a query-protein sequence that belongs to a query-cluster CORASON will find on an Bacterial genome database, other hit-clusters that contains an ortholog of the query-protein and in addition the genomic vicinity of this hit-clusters has at least another sequence similar to some sequence on the query-cluster.
CORASON will do for you the following steps: Look for clusters with an homolog of your protein query (1_Context_text.pl) Extract from those clusters the ones that share at least other homolog with your cluster query (ReadingInputs.pl) Look for the conserved proteins on this clusters (perl 2_OrthoGroups.pl) Align, shave and concatenate the core cluster proteins on a fasta file ready to MrBayes. Create a quick tree with the genomic core of clusters. Draw an SVG file of the hit-clusters sorted according to core genomic tree (3_Draw.pl)
- Links to previous group Work [Evomining Arsenolipidos] (http://gbe.oxfordjournals.org/content/early/2016/06/10/gbe.evw125.abstract), [Evomining Natural products] (http://www.smbb.com.mx/congresos%20smbb/cancun13/TRABAJOS/GIM/SecondaryMetabolitesProduction/GIMIII0925.pdf), [Evomining news] (https://codigof.mx/evomining-plataforma-bioinformatica-mexicano-desarrollar-nuevos-antibioticos/)
[Ziemert et al, June 2016] (http://pubs.rsc.org/en/Content/ArticleLanding/2016/NP/C6NP00025H#!divAbstract), [Marnix & Fischbach, 2015] (http://www.nature.com/nchembio/journal/v11/n9/full/nchembio.1884.html), [The Secondary Metabolite Bioinformatics Portal] (http://www.secondarymetabolites.org/mining/)
