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  "Package": "multiMiR",
  "Title": "Integration of multiple microRNA-target databases with their\ndisease and drug associations",
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  "Authors@R": "c(\nperson(\"Yuanbin\", \"Ru\", email = \"ruyuanbin@gmail.com\", role = c(\"aut\")),\nperson(\"Matt\", \"Mulvahill\", email = \"matt.mulvahill@gmail.com\", role = c(\"aut\")),\nperson(\"Spencer\", \"Mahaffey\", email = \"Spencer.Mahaffey@cuanschutz.edu\", role = c(\"cre\",\"aut\")),\nperson(\"Katerina\", \"Kechris\", email = \"Katerina.Kechris@ucdenver.edu\", role = c(\"aut\", \"cph\", \"ths\")))",
  "Description": "A collection of microRNAs/targets from external resources,\nincluding validated microRNA-target databases (miRecords,\nmiRTarBase and TarBase), predicted microRNA-target databases\n(DIANA-microT, ElMMo, MicroCosm, miRanda, miRDB, PicTar, PITA\nand TargetScan) and microRNA-disease/drug databases\n(miR2Disease, Pharmaco-miR VerSe and PhenomiR).",
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  "BugReports": "https://github.com/KechrisLab/multiMiR/issues",
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        "conserved_tables",
        "diseasedrug_tables",
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        "table_types",
        "validated_tables",
        "validated_tables,"
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      "title": "Get microRNA-target Interactions from the multiMiR Package",
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        "get_multimir"
      ]
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        "list_multimir"
      ]
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        "columns,mmquery_bioc-method",
        "keys,mmquery_bioc-method",
        "keytypes,mmquery_bioc-method",
        "mmquery_bioc-class",
        "select,mmquery_bioc-method",
        "show,mmquery_bioc-method"
      ]
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      "page": "multiMiR",
      "title": "MultiMiR: R package for accessing the multiMiR database",
      "topics": [
        "multiMiR-package",
        "multiMiR",
        "multimir"
      ]
    },
    {
      "page": "multimir_dbInfo",
      "title": "Collect Information About the Web Server And Database of the multiMiR Package",
      "topics": [
        "multimir_dbCount",
        "multimir_dbInfo",
        "multimir_dbInfoVersions",
        "multimir_dbSchema",
        "multimir_dbTables"
      ]
    },
    {
      "page": "multimir_switchDBVersion",
      "title": "Manage Database Version to use",
      "topics": [
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      ]
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      "title": "Search the multiMiR Database Given a MySQL Query",
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        "search_multimir"
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        "Use get_multimir() to query the multiMiR database",
        "Example of multiMiR in a Bioconductor workflow",
        "Examples of multiMiR queries",
        "Example 1: Retrieve all validated target genes of a given miRNA",
        "Example 2: Retrieve miRNA-target interactions associated with a given drug or disease",
        "Example 3: Select miRNAs predicted to target a gene",
        "Example 4: Select miRNA(s) predicted to target most, if not all, of the genes of interest",
        "Example 5: Retrieve interactions between a set of miRNAs and a set of genes",
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