{"id":197,"date":"2021-05-13T22:24:05","date_gmt":"2021-05-13T22:24:05","guid":{"rendered":"http:\/\/crcmoonshot.org\/?page_id=197"},"modified":"2021-05-13T22:24:05","modified_gmt":"2021-05-13T22:24:05","slug":"cms-callers-for-clinical-and-preclinical-applications","status":"publish","type":"page","link":"https:\/\/crcmoonshot.org\/?page_id=197","title":{"rendered":"CMS Callers for Clinical and Preclinical Applications"},"content":{"rendered":"<p>To simplify the testing of CMS we have developed a R shiny app using our published classifier.\u00a0 The application can be found <a href=\"https:\/\/bioinformatics.mdanderson.org\/apps\/CMSclia\/\">here<\/a> as optimized for Nanostring platform.<\/p>\n<p>The reference:<\/p>\n<p id=\"page-title\" class=\"highwire-cite-title\"><a href=\"https:\/\/clincancerres.aacrjournals.org\/content\/27\/1\/120\">Development and Validation of a Gene Signature Classifier for Consensus Molecular Subtyping of Colorectal Carcinoma in a CLIA-Certified Setting<\/a><\/p>\n<p>The underlying code is available <a href=\"https:\/\/mdacc.box.com\/s\/6a0wud1v2vjbf9ar6rwphs0tx7pd3nwg\">here<\/a> within the MD Anderson intranet.<\/p>\n<p>&nbsp;<\/p>\n<p><strong>For pre-clinical applications<\/strong>, we would recommend the following CMS caller which is not impacted by presence of nonhuman stroma, or absence of stroma.<\/p>\n<p class=\"c-article-title\" data-test=\"article-title\"><a href=\"https:\/\/www.nature.com\/articles\/s41598-017-16747-x\">CMScaller: an R package for consensus molecular subtyping of colorectal cancer pre-clinical models<\/a><\/p>\n","protected":false},"excerpt":{"rendered":"<p>To simplify the testing of CMS we have developed a R shiny app using our published classifier.\u00a0 The application can be found here as optimized for Nanostring platform. The reference: Development and Validation of a Gene Signature Classifier for Consensus Molecular Subtyping of Colorectal Carcinoma in a CLIA-Certified Setting The underlying code is available here &hellip; <a href=\"https:\/\/crcmoonshot.org\/?page_id=197\" class=\"more-link\">Continue reading <span class=\"screen-reader-text\">CMS Callers for Clinical and Preclinical Applications<\/span><\/a><\/p>\n","protected":false},"author":4,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":[],"_links":{"self":[{"href":"https:\/\/crcmoonshot.org\/index.php?rest_route=\/wp\/v2\/pages\/197"}],"collection":[{"href":"https:\/\/crcmoonshot.org\/index.php?rest_route=\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/crcmoonshot.org\/index.php?rest_route=\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/crcmoonshot.org\/index.php?rest_route=\/wp\/v2\/users\/4"}],"replies":[{"embeddable":true,"href":"https:\/\/crcmoonshot.org\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=197"}],"version-history":[{"count":1,"href":"https:\/\/crcmoonshot.org\/index.php?rest_route=\/wp\/v2\/pages\/197\/revisions"}],"predecessor-version":[{"id":198,"href":"https:\/\/crcmoonshot.org\/index.php?rest_route=\/wp\/v2\/pages\/197\/revisions\/198"}],"wp:attachment":[{"href":"https:\/\/crcmoonshot.org\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=197"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}