{"id":2636,"date":"2023-02-15T11:31:54","date_gmt":"2023-02-15T03:31:54","guid":{"rendered":"http:\/\/www.biocloudservice.com\/wordpress\/?p=2636"},"modified":"2023-02-15T11:31:55","modified_gmt":"2023-02-15T03:31:55","slug":"%e5%9f%ba%e4%ba%8e%e8%a1%a8%e8%be%be%e4%bf%a1%e6%81%af%e6%8c%96%e6%8e%98%e4%b8%8e%e9%9d%b6%e5%9f%ba%e5%9b%a0%e7%9b%b8%e5%85%b3%e7%9a%84%e5%9f%ba%e5%9b%a0","status":"publish","type":"post","link":"http:\/\/www.biocloudservice.com\/wordpress\/?p=2636","title":{"rendered":"\u57fa\u4e8e\u8868\u8fbe\u4fe1\u606f\u6316\u6398\u4e0e\u9776\u57fa\u56e0\u76f8\u5173\u7684\u57fa\u56e0"},"content":{"rendered":"\n

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\u7f51\u5740\uff1ahttp:\/\/www.biocloudservice.com\/123\/123.php<\/a><\/p>\n\n\n\n

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\u64cd\u4f5c:<\/strong><\/p>\n\n\n\n

    \n
  1. \u5bf9\u53c2\u6570\u8fdb\u884c\u8bbe\u7f6e\u3002\u8fd9\u91cc\uff0c\u5fc5\u987b\u8f93\u5165\u53c2\u6570\u67093\u4e2a\uff0c\u5206\u522b\u662f-Eset\uff0c\u8868\u793a\u57fa\u56e0\u8868\u8fbe\u77e9\u9635\u6587\u4ef6\uff0c\u4ee5\u57fa\u56e0\u4e3a\u884c\uff0c\u6837\u672c\u4e3a\u5217\uff0c\u4fdd\u5b58\u4e3acsv\u6587\u4ef6\uff1b-symbol\uff0c\u8868\u793a\u5173\u6ce8\u7684\u57fa\u56e0\u540d\u79f0\uff0c\u4e3agene symbol\u683c\u5f0f\uff0c\u5fc5\u987b\u5305\u542b\u5728\u57fa\u56e0\u8868\u8fbe\u77e9\u9635\u7684\u884c\u540d\u4e2d\uff1b-topnumber\uff0c\u8868\u793a\u9884\u671f\u7ed8\u5236\u7684\u4e0e\u5173\u6ce8\u57fa\u56e0\u6700\u76f8\u5173\u7684\u57fa\u56e0\u4e2a\u6570\uff0c\u8fd9\u91cc\u5047\u5982\u662f6\uff0c\u5219\u4f1a\u7ed8\u5236\u4e0e\u5173\u6ce8\u57fa\u56e0\u6700\u6b63\u76f8\u5173\u76846\u4e2a\u548c\u6700\u8d1f\u76f8\u5173\u76846\u4e2a\u57fa\u56e0\u7684\u76f8\u5173\u6027\u6563\u70b9\u56fe\u3002<\/li>\n\n\n\n
  2. \u70b9\u51fb\u4e0a\u4f20\u6570\u636e \u8f93\u5165***\u6587\u4ef6\uff0c\u8f93\u5165\u7684\u6587\u4ef6\u540d\u5fc5\u987b\u548c\u793a\u4f8b\u6587\u4ef6\u540d\u4e00\u81f4\uff0c\u4e14\u90fd\u662f\u82f1\u6587\u65e0\u7279\u6b8a\u5b57\u7b26\u3002 \u5982\u679c\u4f7f\u7528\u81ea\u6709\u6570\u636e\u65f6\uff0c\u9700\u6ce8\u610f\u6587\u4ef6\u540d\u548c\u5bf9\u5e94\u7684\u5185\u5bb9\u8981\u5339\u914d\uff0c\u4ee5\u53ca\u8f93\u5165\u6570\u636e\u91cc\u7684\u884c\u540d\u5217\u540d\u7b49\u7b49\u3002<\/li>\n\n\n\n
  3. \u5982\u6709\u975e\u6587\u4ef6\u7c7b\u53c2\u6570\uff0c\u70b9\u51fb \u8f93\u5165\u53c2\u6570\u5bf9\u5e94\u7684\u503c,\u9ed8\u8ba4\u6bd4\u5982 pvalue\u503c\u662f0.05 gene \u503c\u662f TP53<\/li>\n<\/ol>\n\n\n\n

    \u64cd\u4f5c\u622a\u56fe\uff1a<\/p>\n\n\n\n

    1.\u793a\u4f8b\u6570\u636e\u8fd0\u884c\u64cd\u4f5c\u622a\u56fe\uff1a<\/p>\n\n\n\n

    \u70b9\u51fb \u8fd0\u884c\u793a\u4f8b\u6570\u636e<\/strong>\uff0c\u7136\u540e\u7b49\u5f85\u5f39\u51fa\u7684\u7f51\u9875\u8fd0\u884c\u5b8c\u6210\uff0c\u5177\u4f53\u8017\u65f6\u6839\u636e\u7a0b\u5e8f\u6765\u5b9a\uff0c\u4e00\u822c2-3\u5206\u949f\u5185\u5b8c\u6210\u3002<\/p>\n\n\n\n

    \"\"<\/figure>\n\n\n\n
      \n
    1. \u8fd0\u884c\u81ea\u6709\u6570\u636e\u64cd\u4f5c\u622a\u56fe<\/li>\n<\/ol>\n\n\n\n

      \u70b9\u51fb \u4e0a\u4f20\u6570\u636e–\u4e0a\u4f20–\u4e0a\u4f20\u9700\u8981\u7684\u6587\u4ef6(\u53ef\u4ee5\u53c2\u8003\u8f93\u5165\u6570\u636e\u6a21\u677f\uff0c\u53ef\u80fd1\u4e2a\u6216\u591a\u4e2a)<\/p>\n\n\n\n

      \u70b9\u51fb \u8fd0\u884c\u81ea\u6709\u6570\u636e\uff0c\u7b49\u5f85\u7a0b\u5e8f\u8fd0\u884c\u7ed3\u675f\u540e\u65b0\u5f39\u51fa\u7684\u7f51\u9875\u5c31\u4f1a\u663e\u793a\u7ed3\u679c\uff0c\u62c9\u5230\u6700\u4e0b\u65b9\uff0c\u70b9\u51fb\u201c\u7ed3\u679c\u4e0b\u8f7d\u201d\u6216\u201c\u4e0b\u8f7d\u5168\u90e8\u6587\u4ef6\u201d\u5c31\u53ef\u4ee5\u6279\u91cf\u4e0b\u8f7d\u4e86\u3002<\/p>\n\n\n\n

      \"\"<\/figure>\n\n\n\n

      \u8f93\u5165\u6587\u4ef6\u540d\uff1a<\/strong><\/p>\n\n\n\n

      \u8f93\u5165\u6587\u4ef6\u540d1\uff1a<\/strong>expr.csv<\/p>\n\n\n\n

      \u8f93\u5165\u5176\u4ed6\u53c2\u6570<\/strong><\/p>\n\n\n\n

      Symbol\uff1aHDAC1<\/p>\n\n\n\n

      Topnumber\uff1a6<\/p>\n\n\n\n

      \u8f93\u5165\u6587\u4ef6\u754c\u9762\u5c55\u793a\u622a\u56fe\u793a\u4f8b<\/strong><\/p>\n\n\n\n

      \u57fa\u56e0\u8868\u8fbe\u77e9\u9635\u8f93\u5165\u6587\u4ef6\uff08<\/strong>\u57fa\u56e0\u4e3a\u884c\uff0c\u6837\u672c\u4e3a\u5217\uff09<\/strong><\/p>\n\n\n\n

      \u8f93\u51fa\u6587\u4ef6\uff1a<\/strong><\/p>\n\n\n\n

      \u5171\u8f93\u51fa\u4e00\u4e2a\u8868\u683ccsv\u683c\u5f0f\u6587\u4ef6\uff0c\u4e00\u4e2apdf\u683c\u5f0f\u7684\u56fe\u7247\u6587\u4ef6<\/p>\n\n\n\n

      1.HDAC1_cor.pdf<\/strong><\/p>\n\n\n\n

      \"\"<\/figure>\n\n\n\n

      \u8be5\u56fe\u8868\u793a\u5404\u4e2a\u57fa\u56e0\u4e0e\u5173\u6ce8\u57fa\u56e0\u7684\u76f8\u5173\u6027\u6563\u70b9\u56fe\uff0c\u7eb5\u8f74\u540d\u79f0\u662f\u5176\u5b83\u5404\u4e2a\u57fa\u56e0symbol\uff0c\u6a2a\u8f74\u540d\u79f0\u4e3a\u5173\u6ce8\u57fa\u56e0symbol\uff0c\u6700\u4e0a\u65b9P\u503c\u8868\u793a\u663e\u8457\u884cp.value\u503c\uff0cr\u503c\u8868\u793apearson\u76f8\u5173\u7cfb\u6570<\/p>\n\n\n\n

        \n
      1. HDAC1other_gene_cor.csv<\/strong><\/li>\n<\/ol>\n\n\n\n
        \"\"<\/figure>\n\n\n\n

        \u8be5\u8868\u683c\u8868\u793a\u5404\u4e2a\u57fa\u56e0\u548c\u5173\u6ce8\u57fa\u56e0\u4e4b\u95f4\u7684\u76f8\u5173\u7cfb\u6570\u53cap.value\u503c\uff0c\u7b2c\u4e8c\u548c\u7b2c\u4e09\u5217\u5206\u522b\u8868\u793a\u8ba1\u7b97\u5f97\u5230\u7684\u5404\u4e2a\u57fa\u56e0\u548c\u5173\u6ce8\u57fa\u56e0\u7684pearson\u76f8\u5173\u7cfb\u6570\u548c\u5bf9\u5e94\u7684\u663e\u8457\u6027p.value\u503c\uff0c\u7b2c\u56db\u548c\u7b2c\u4e94\u5217\u5206\u522b\u8868\u793a\u8ba1\u7b97\u5f97\u5230\u7684\u5404\u4e2a\u57fa\u56e0\u548c\u5173\u6ce8\u57fa\u56e0\u7684spearman\u76f8\u5173\u7cfb\u6570\u548c\u5bf9\u5e94\u7684\u663e\u8457\u6027p.value\u503c\uff0c\u7b2c\u516d\u5217\u4e3a\u5bf9\u5e94\u7684\u57fa\u56e0symbol<\/p>\n\n\n\n

        \u670d\u52a1\u5668\u8fd0\u884c\u6d41\u7a0b<\/h1>\n\n\n\n

        1\u3001\u8f6f\u4ef6\u5185\u5bb9\u53ca\u6d41\u7a0b\uff1a<\/h1>\n\n\n\n

        \u5171\u5305\u542b1\u4e2aR\u8bed\u8a00\u811a\u672c\uff0c\u811a\u672c\u4ecb\u7ecd\u5982\u4e0b\uff1a<\/p>\n\n\n\n

        \uff081\uff09batchCorrelation.r<\/h1>\n\n\n\n

        \u7a0b\u5e8f\u540d\u79f0\uff1a<\/strong><\/p>\n\n\n\n

        batchCorrelation.r<\/strong><\/p>\n\n\n\n

        \u529f\u80fd\u63cf\u8ff0\uff1a<\/strong><\/p>\n\n\n\n

        \u5728\u751f\u4fe1\u5206\u6790\u4e2d\uff0c\u6211\u4eec\u5f80\u5f80\u5e0c\u671b\u5bf9\u6211\u4eec\u5173\u6ce8\u7684\u67d0\u4e00\u4e2a\u57fa\u56e0\u8fdb\u884c\u4e0b\u6e38\u529f\u80fd\u7684\u63a2\u7d22\uff0c\u7136\u800c\uff0c\u5355\u4e2a\u57fa\u56e0\u60f3\u8981\u7814\u7a76\uff0c\u5927\u591a\u6570\u60c5\u51b5\u4e0b\u53ea\u80fd\u662f\u901a\u8fc7\u5b9e\u9a8c\u8fdb\u884c\uff0c\u901a\u5e38\u4f1a\u5bf9\u8be5\u57fa\u56e0\u8fdb\u884c\u6572\u9664\u6216\u8fc7\u8868\u8fbe\u540e\u8fdb\u884c\u6d4b\u5e8f\uff0c\u4ece\u800c\u548c\u6b63\u5e38\u7ec4\u8fdb\u884c\u6bd4\u8f83\uff0c\u5f97\u5230\u5dee\u5f02\u57fa\u56e0\u8ba4\u4e3a\u662f\u53d7\u8be5\u57fa\u56e0\u5f71\u54cd\u7684\uff0c\u4f46\u662f\u8fd9\u6837\u505a\u4e00\u662f\u8017\u65f6\u8017\u529b\uff0c\u800c\u662f\u5f97\u5230\u7684\u5dee\u5f02\u57fa\u56e0\u4ecd\u7136\u662f\u4e00\u5806\uff0c\u6211\u4eec\u4ecd\u7136\u4e0d\u77e5\u9053\u54ea\u4e9b\u57fa\u56e0\u548c\u8be5\u57fa\u56e0\u5bc6\u5207\u76f8\u5173\u3002\u76ae\u5c14\u68ee\u76f8\u5173\u7cfb\u6570\u548c\u65af\u76ae\u5c14\u66fc\u76f8\u5173\u7cfb\u6570\u4e3a\u7814\u7a76\u57fa\u56e0\u4e4b\u95f4\u7684\u8868\u8fbe\u76f8\u5173\u6027\u63d0\u4f9b\u4e86\u5f88\u597d\u7684\u601d\u8def\uff0c\u56e0\u6b64\u672c\u8f6f\u4ef6\u901a\u8fc7\u57fa\u4e8e\u57fa\u56e0\u5728\u5404\u4e2a\u6837\u672c\u4e2d\u7684\u8868\u8fbe\u77e9\u9635\uff0c\u5229\u7528\u76ae\u5c14\u68ee\u76f8\u5173\u7cfb\u6570\u548c\u65af\u76ae\u5c14\u66fc\u76f8\u5173\u7cfb\u6570\u8ba1\u7b97\u539f\u7406\uff0c\u5206\u522b\u83b7\u5f97\u5404\u4e2a\u57fa\u56e0\u4e0e\u5173\u6ce8\u57fa\u56e0\u7684\u76f8\u5173\u6027\u6392\u540d\uff0c\u901a\u8fc7\u7ed9\u5b9a\u7684\u57fa\u56e0\u4e2a\u6570N\uff0c\u7ed8\u5236\u76f8\u5173\u6027\u6700\u5f3a\u7684TOPN\u57fa\u56e0\u548c\u5173\u6ce8\u57fa\u56e0\u7684\u6563\u70b9\u5206\u5e03\u56fe\uff0c\u5e76\u6807\u8bc6\u51fa\u5177\u4f53\u7684\u76f8\u5173\u7cfb\u6570\u548c\u663e\u8457\u6027p.value\u503c\uff0c\u4ece\u800c\u4e3a\u4e0b\u6e38\u529f\u80fd\u7814\u7a76\u63d0\u4f9b\u53c2\u8003\u3002<\/p>\n\n\n\n

        \u4f7f\u7528\u65b9\u6cd5\uff1a<\/strong><\/p>\n\n\n\n

        batchCorrelation.r -Eset= -symbol= -topnumber=<\/p>\n\n\n\n

        \u53c2\u6570\u8bf4\u660e\uff1a<\/strong><\/p>\n\n\n\n

        USAGE:<\/p>\n\n\n\n

        batchCorrelation.r -Eset=<Eset> -symbol=<symbol> -topnumber=<topnumber><\/p>\n\n\n\n

        PARAMETERS:<\/p>\n\n\n\n

        -Eset the gene expression matrix ,gene as row,sample as column, input csv format.<\/p>\n\n\n\n

        -symbol the gene of interested ,input gene symbol format.<\/p>\n\n\n\n

        -topnumber the number genes of most significantly related to the gene of interested, input integer format.<\/p>\n\n\n\n

        Rscript \/var\/www\/r\/batchCorrelation.r -Eset=’expr.csv’ -symbol=”HDAC1″ -topnumber=6<\/p>\n\n\n\n

        \u64cd\u4f5c\u6b65\u9aa4\uff1a<\/strong><\/p>\n\n\n\n

        1\u3001\u6253\u5f00\u547d\u4ee4\u884c\u754c\u9762\uff0c\u8f93\u5165\u201cRscript batchCorrelation.r\u201d\u8c03\u9605\u5e2e\u52a9\u6587\u6863\uff0c\u786e\u5b9a\u8be5\u7a0b\u5e8f\u6240\u9700\u7684\u8f93\u5165\u6587\u4ef6\u3002<\/p>\n\n\n\n

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        \u64cd\u4f5c\u754c\u9762\u622a\u56fe\uff1a<\/strong><\/p>\n\n\n\n

          \n
        1. \u53c2\u6570\u8bf4\u660e\u6587\u6863\u8c03\u9605\u622a\u56fe\u8bf4\u660e<\/li>\n<\/ol>\n\n\n\n
          \"C:\\Users\\Administrator\\AppData\\Roaming\\DingTalk\\531315465_v2\\ImageFiles\\9a\\lALPDh0cQmipVJDNAgzNAv8_767_524.png\"<\/figure>\n\n\n\n
            \n
          1. \u8f93\u5165\u6587\u4ef6\u754c\u9762\u5c55\u793a\u622a\u56fe\u793a\u4f8b<\/li>\n<\/ol>\n\n\n\n

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              \n
            1. \u7a0b\u5e8f\u8fd0\u884c\u754c\u9762\u622a\u56fe<\/li>\n<\/ol>\n\n\n\n

              \u7a0b\u5e8f\u8fd0\u884c\u5b8c\u6bd5\u63d0\u793a\uff1a<\/strong><\/p>\n\n\n\n

              \"\"<\/figure>\n\n\n\n
                \n
              1. \u7a0b\u5e8f\u8fd0\u884c\u7ed3\u679c\u754c\u9762\u5c55\u793a<\/li>\n<\/ol>\n\n\n\n
                \"\"<\/figure>\n\n\n\n

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                1.HDAC1_cor.pdf<\/strong><\/p>\n\n\n\n

                \"\"<\/figure>\n\n\n\n

                \u8be5\u56fe\u8868\u793a\u5404\u4e2a\u57fa\u56e0\u4e0e\u5173\u6ce8\u57fa\u56e0\u7684\u76f8\u5173\u6027\u6563\u70b9\u56fe\uff0c\u7eb5\u8f74\u540d\u79f0\u662f\u5176\u5b83\u5404\u4e2a\u57fa\u56e0symbol\uff0c\u6a2a\u8f74\u540d\u79f0\u4e3a\u5173\u6ce8\u57fa\u56e0symbol\uff0c\u6700\u4e0a\u65b9P\u503c\u8868\u793a\u663e\u8457\u884cp.value\u503c\uff0cr\u503c\u8868\u793apearson\u76f8\u5173\u7cfb\u6570<\/p>\n\n\n\n

                  \n
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                  \"\"<\/figure>\n\n\n\n

                  \u8be5\u8868\u683c\u8868\u793a\u5404\u4e2a\u57fa\u56e0\u548c\u5173\u6ce8\u57fa\u56e0\u4e4b\u95f4\u7684\u76f8\u5173\u7cfb\u6570\u53cap.value\u503c\uff0c\u7b2c\u4e8c\u548c\u7b2c\u4e09\u5217\u5206\u522b\u8868\u793a\u8ba1\u7b97\u5f97\u5230\u7684\u5404\u4e2a\u57fa\u56e0\u548c\u5173\u6ce8\u57fa\u56e0\u7684pearson\u76f8\u5173\u7cfb\u6570\u548c\u5bf9\u5e94\u7684\u663e\u8457\u6027p.value\u503c\uff0c\u7b2c\u56db\u548c\u7b2c\u4e94\u5217\u5206\u522b\u8868\u793a\u8ba1\u7b97\u5f97\u5230\u7684\u5404\u4e2a\u57fa\u56e0\u548c\u5173\u6ce8\u57fa\u56e0\u7684spearman\u76f8\u5173\u7cfb\u6570\u548c\u5bf9\u5e94\u7684\u663e\u8457\u6027p.value\u503c\uff0c\u7b2c\u516d\u5217\u4e3a\u5bf9\u5e94\u7684\u57fa\u56e0symbol<\/p>\n\n\n\n

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                  <\/h1>\n","protected":false},"excerpt":{"rendered":"

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