Changes between Version 44 and Version 45 of VisualizationWg

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Timestamp:
2009/03/19 12:14:22 (15 years ago)
Author:
kozo-ni
Comment:

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  • VisualizationWg

    v44 v45  
    3838== Usecase/Data == 
    3939 * Cytoscape 
    40    * kozo-ni's usecase 
    41      * retrieve a organism's all metabolic reactions from KEGG 
    42      * convert node format from [compound -> enzyme -> compound] to [compound -> compound] or [enzyme -> enzyme] like following paper 
    43        * http://bioinformatics.oxfordjournals.org/cgi/content/full/22/14/1767 
    44      * calculate betweeneth and find bottlenecks (currently I use CentiScaPe plugin or igraph[R library]) 
    45      * map gene expression to enzyme 
     40   * kozo-ni(kozo-ni@is.naist.jp) 
     41     * usecase 
     42       * retrieve an organism's all metabolic reactions from KEGG 
     43       * convert node format from [compound -> enzyme -> compound] to [compound -> compound] or [enzyme -> enzyme] like following paper 
     44         * http://bioinformatics.oxfordjournals.org/cgi/content/full/22/14/1767 
     45       * calculate betweeneth and find bottlenecks (currently I use CentiScaPe plugin or igraph[R library]) 
     46       * map gene expression to enzyme 
     47     * data 
     48       * affymetrix gene-chip expression data 
     49     * functionality needs 
     50       * get an organism's all metabolic reactions from KEGG 
     51       * draw enzyme or compound centric network. (In enzyme centric network, enzyme nodes share a common compound. In compound centric network, compound nodes share a common enzyme.) 
    4652 * ?? 
    4753   * 1000genomes.org: displaying SNP locations of the individuals (which reference ?) ? status on dbSNP ? Is it a 'true' snp : the user wants to 'see' the short reads overlapping this variation