{"id":59044,"date":"2024-06-17T07:31:37","date_gmt":"2024-06-16T23:31:37","guid":{"rendered":"https:\/\/www.biocloudservice.com\/wordpress\/?p=59044"},"modified":"2026-09-11T23:07:49","modified_gmt":"2026-09-11T15:07:49","slug":"%e3%80%90%e4%b8%80%e6%96%87%e4%b8%80%e5%88%86%e9%92%9f%e3%80%91%e5%bf%ab%e9%80%9f%e7%9c%8b%e6%87%82gsea%e7%bb%93%e6%9e%9c%ef%bc%81","status":"publish","type":"post","link":"https:\/\/www.biocloudservice.com\/wordpress\/%e3%80%90%e4%b8%80%e6%96%87%e4%b8%80%e5%88%86%e9%92%9f%e3%80%91%e5%bf%ab%e9%80%9f%e7%9c%8b%e6%87%82gsea%e7%bb%93%e6%9e%9c%ef%bc%81\/","title":{"rendered":"\u3010\u4e00\u6587\u4e00\u5206\u949f\u3011\u5feb\u901f\u770b\u61c2GSEA\u7ed3\u679c\uff01"},"content":{"rendered":"<aside class=\"ysx-source-note\"><span>\u6765\u6e90<\/span><\/p>\n<p>\u516c\u4f17\u53f7\u300c\u751f\u4fe1\u56fe\u300d\u5386\u53f2\u5185\u5bb9\uff1b\u672c\u6587\u4fdd\u7559\u539f\u6709\u6280\u672f\u4fe1\u606f\u5e76\u4f18\u5316\u7f51\u9875\u6392\u7248\u3002 <a href=\"http:\/\/mp.weixin.qq.com\/s?__biz=MzkxODUxNDgzNA==&amp;mid=2247483755&amp;idx=1&amp;sn=3e563339dc16d85b4b2cf8562af1c6d1\" target=\"_blank\" rel=\"noopener noreferrer nofollow\">\u67e5\u770b\u539f\u6587<\/a><\/p>\n<\/aside>\n<p>\u5c0f\u56fe\u5728\u4e0a\u4e00\u7bc7\u6587\u7ae0\uff1a<a target=\"_blank\" href=\"http:\/\/mp.weixin.qq.com\/s?__biz=MzkxODUxNDgzNA==&amp;mid=2247483730&amp;idx=1&amp;sn=abc7095012e15da0a0c27ec4d79ec243&amp;chksm=c1b17caff6c6f5b93c5fc3b02da32d7e65aaf6063f50cde671373bf81595115c30ae0235ffb1&amp;scene=21#wechat_redirect\" rel=\"noopener noreferrer\"><strong>GSEA\u5bcc\u96c6\u5206\u6790\u2014\u2014\u770b\u4e86\u4e4b\u540e\uff0c\u5c0f\u5b66\u4e09\u5e74\u7ea7\u7684\u59b9\u59b9\u90fd\u5b66\u4f1a\u4e86\uff01<\/strong><\/a>\u4e2d\uff0c\u4ecb\u7ecd\u4e86\u5982\u4f55\u4f7f\u7528 GSEA\u8fdb\u884c\u5bcc\u96c6\u5206\u6790\u3002<\/p>\n<p>\u6709\u5c0f\u4f19\u4f34\u7eb7\u7eb7\u53cd\u6620\uff0cGSEA\u7ed3\u679c\u4e0d\u4f1a\u89e3\u8bfb<\/p>\n<p>\u90a3\u4e48\u597d\uff0c\u54b3\u54b3~\u5c0f\u56fe\u3010\u4e00\u6587\u4e00\u5206\u949f\u3011\u8bfe\u5802\u5f00\u8bfe<\/p>\n<p><strong>\u4eca\u5929\u5c0f\u56fe\u8981\u89e3\u51b3\u7684\u95ee\u9898\u4fbf\u662f\uff1aGSEA \u7684\u5206\u6790\u7ed3\u679c\u600e\u4e48\u770b\uff1f<\/strong><\/p>\n<p>\u8bdd\u4e0d\u591a\u8bf4~\u73b0\u5728\u5f00\u59cb<\/p>\n<h2>\u4ece\u7ed3\u679c\u9996\u9875\u5b9a\u4f4d\u663e\u8457\u901a\u8def<\/h2>\n<p>\u5c0f\u56fe\u6536\u5230GSEA\u5206\u6790\u7ed3\u679c\u540e\uff0c\u6253\u5f00GSEA\u6587\u4ef6\u5939\uff0c\u53ef\u4ee5\u901a\u8fc7\u641c\u7d22\u201cindex\u201d\uff0c\u67e5\u770bGSEA\u5206\u6790\u7ed3\u679c\uff1a<\/p>\n<figure><img data-recalc-dims=\"1\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_YrGtnJTCC1CoXcpoOS9M7RxTk6NJGA.png?ssl=1\" loading=\"lazy\" decoding=\"async\" alt=\"\"><\/figure>\n<p>\u70b9\u51fb<strong>index.html<\/strong><\/p>\n<figure><img data-recalc-dims=\"1\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_KiaCzlwXfW9KtGXwtJdCEkYM8GuXNw.png?ssl=1\" loading=\"lazy\" decoding=\"async\" alt=\"\"><\/figure>\n<p>\u7f51\u9875\u62a5\u544a\u4e2d\u4e0b\u5212\u7ebf\u90e8\u5206\u90fd\u53ef\u4ee5\u70b9\u51fb\uff0c\u94fe\u63a5\u5230\u5176\u4ed6\u7f51\u9875\u6216\u8005\u6587\u4ef6\u67e5\u770b\u5177\u4f53\u4fe1\u606f\u3002<\/p>\n<p>\u70b9\u51fb<strong>Snapshot<\/strong>\u4f1a\u51fa\u73b0\u8fd9114\u6761\u901a\u8def\u7684\u6761\u5f62\u7801\u5bcc\u96c6\u56fe\uff0c\u5982\u4e0b\uff1a<\/p>\n<figure><img data-recalc-dims=\"1\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_313NsAnkS4w5ScYibsmibK5FNKq1xg.png?ssl=1\" loading=\"lazy\" decoding=\"async\" alt=\"\"><\/figure>\n<p>\u70b9\u51fb<strong>enrichment results in html format<\/strong>\u5219\u4f1a\u663e\u793a\u8fd9114\u6761\u901a\u8def\u7684\u5bcc\u96c6\u8be6\u60c5\uff1a<\/p>\n<figure><img data-recalc-dims=\"1\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_pttQz5zziaEE766yxBcX7byPXVtZuA.png?ssl=1\" loading=\"lazy\" decoding=\"async\" alt=\"\"><\/figure>\n<p><strong>\u8bfb\u5230\u8fd9\u91cc\uff0c\u60f3\u5fc5\u56fe\u4e2d\u7684\u7f29\u5199\u5c0f\u4f19\u4f34\u770b\u7684\u4e00\u5934\u96fe\u6c34\u5427\uff0c\u5c0f\u56fe\u6765\u4e00\u4e00\u9053\u6765<\/strong><\/p>\n<p><strong>GS\uff1a<\/strong>\u57fa\u56e0\u96c6\u7684\u540d\u79f0\uff08GO term\u6216KEGG pathway\u540d\u79f0\uff09<\/p>\n<p><strong>Size\uff1a<\/strong>\u901a\u8def\/\u6761\u76ee\u4e0b\u5305\u542b\u7684\u57fa\u56e0\u6570\u76ee\uff08\u7ecf\u8fc7\u6761\u4ef6\u7b5b\u9009\u540e\u7684\u503c\uff09<\/p>\n<p><strong>ES\uff1a<\/strong>\u5bcc\u96c6\u5f97\u5206\uff08enrichment score\uff09<\/p>\n<p><strong>NES\uff1a<\/strong>ES\u7684\u6807\u51c6\u5316\u503c\uff08normalized enrichment score\uff09\uff0c\u540c\u65f6\u8003\u8651\u57fa\u56e0\u96c6\u7684\u4e2a\u6570\u53ca\u57fa\u56e0\u6570\u76ee\uff0cNES\u7684\u503c\u4ee3\u8868\u8be5\u57fa\u56e0\u96c6\u4e2d\u7684\u57fa\u56e0\u5728\u6574\u4f53\u57fa\u56e0\u6392\u5e8f\u5217\u8868\u4e2d\u7684\u5bcc\u96c6\u7a0b\u5ea6\u3002\u7b80\u5355\u7406\u89e3NES\u4e3a\u6b63\u503c\u57fa\u56e0\u96c6\u4e0a\u8c03\uff0c\u8d1f\u503c\u57fa\u56e0\u96c6\u4e0b\u8c03\u3002<\/p>\n<p><strong>NOM p-val\uff1a<\/strong>P-value\uff0c\u9488\u5bf9ES\u7684\u6392\u5217\u68c0\u9a8c\uff0c\u8868\u793a\u57fa\u56e0\u96c6\u5bcc\u96c6\u7684\u663e\u8457\u6027<\/p>\n<p><strong>FDR q-val\uff1a<\/strong>FDR\u6cd5\u6821\u6b63\u7684p\u503c<\/p>\n<p><strong>FWER p-val\uff1a<\/strong>\u7528FWER\u6cd5\uff08Bonferonni\u6821\u6b63\uff09\u6821\u6b63\u540e\u7684P\u503c<\/p>\n<p><strong>RANK AT MAX\uff1a<\/strong>\u5f53ES\u503c\u8fbe\u5230\u6700\u5927\u65f6\u5bf9\u5e94\u7684\u90a3\u4e2a\u57fa\u56e0\u5728\u6392\u5e8f\u597d\u7684\u57fa\u56e0\u5217\u8868\u4e2d\u6240\u5904\u7684\u4f4d\u7f6e<\/p>\n<p><strong>LEADING \uff1a<\/strong>\u6838\u5fc3\u57fa\u56e0\u96c6\uff0c\u5bf9ES\u8d21\u732e\u6700\u5927\u7684\u57fa\u56e0\u6210\u5458\uff1b\u8be5\u5904\u67093\u4e2a\u7edf\u8ba1\u503c\uff1a<\/p>\n<p><strong>tags\uff1a<\/strong>\u6838\u5fc3\u57fa\u56e0\u96c6\u5360\u8be5\u57fa\u56e0\u96c6\u4e2d\u57fa\u56e0\u603b\u6570\u7684\u767e\u5206\u6bd4\uff1b<\/p>\n<p><strong>list\uff1a<\/strong>\u6838\u5fc3\u57fa\u56e0\u5360\u6240\u6709\u57fa\u56e0\u7684\u767e\u5206\u6bd4\uff1b<\/p>\n<p><strong>signal\uff1a<\/strong>\u5c06\u524d\u4e24\u9879\u7edf\u8ba1\u6570\u636e\u5408\u5728\u4e00\u8d77\u8ba1\u7b97\u51fa\u7684\u5bcc\u96c6\u4fe1\u53f7\u5f3a\u5ea6\u3002<\/p>\n<p>\u4e00\u822c\u8ba4\u4e3a|NES|&gt;1\uff0cNOM p-val&lt;0.05\uff0cFDR q-val&lt;0.25\u7684\u901a\u8def\u662f\u663e\u8457\u5bcc\u96c6\u7684\u3002<\/p>\n<p>\u70b9\u51fbdetail\u67e5\u770b\u57fa\u56e0\u96c6\u5bcc\u96c6\u7684\u8be6\u7ec6\u7ed3\u679c\uff0cGSEA\u9ed8\u8ba4\u5c55\u793a\u524d20\u4e2a\u57fa\u56e0\u96c6\u7ed3\u679c\u3002\u4ee5RIG_I_LIKE_RECEPTOR_SIGNALING_PATHWAY\u901a\u8def\u4e3a\u4f8b\uff1a<\/p>\n<p>\u6253\u5f00\u540e\uff0c\u9875\u9762\u5982\u4e0b\uff1a<\/p>\n<figure><img data-recalc-dims=\"1\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_EFRwMOf8gibNykdkcuude7YmdFC1GQ.png?ssl=1\" loading=\"lazy\" decoding=\"async\" alt=\"\"><\/figure>\n<p><strong>\u770b\u6765\u53c8\u5230\u89e3\u8bfb\u65f6\u95f4\u4e86\u2014\u2014<\/strong><\/p>\n<p>\u5982\u4e0a\u56fe\uff0c\u63cf\u8ff0\u7684\u4fe1\u606f\u4e3a\uff1aRIG_I_LIKE_RECEPTOR_SIGNALING_PATHWAY \u901a\u8def\u5728A\u7ec4\u4e0a\u8c03\uff08\u663e\u8457\u5bcc\u96c6\u5728 A \u7684\u9876\u7aef\uff09\uff0c\u7136\u540e\u662f\u5426\u663e\u8457\u5462\uff1f\u540e\u9762\u7684 ES\u3001NES\u3001pval\u3001FDR \u7b49\u7edf\u8ba1\u503c\u7ed9\u51fa\u4e86\u7b54\u6848\u3002<\/p>\n<figure><img data-recalc-dims=\"1\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_3pMrzqlT59EaZhNKhBELia5hQHPU3A.png?ssl=1\" loading=\"lazy\" decoding=\"async\" alt=\"\"><\/figure>\n<p><strong>\u518d\u63a5\u518d\u5389\u2014\u2014<\/strong><\/p>\n<p>\u5982\u4e0a\u56fe\uff0c\u5bcc\u96c6\u56fe\u4e00\u5171\u5206\u4e3a\u4e0a\u4e2d\u4e0b 3 \u90e8\u5206\uff1a<\/p>\n<h2>1. ES \u5bcc\u96c6\u5f97\u5206\u66f2\u7ebf<\/h2>\n<p><strong>\u7b2c\u4e00\u90e8\u5206 ES \u6298\u7ebf\u56fe\uff1a<\/strong>\u663e\u793a\u4e86\u5f53\u5206\u6790\u6cbf\u7740\u6392\u5e8f\u57fa\u56e0\u96c6\u6309\u6392\u5e8f\u8ba1\u7b97\u65f6\uff0cES \u503c\u5728\u8ba1\u7b97\u5230\u6bcf\u4e2a\u4f4d\u7f6e\u65f6\u7684\u5c55\u793a\u3002\u6700\u9ad8\u5cf0\u5904\u7684ES\u5f97\u5206\u662f\u57fa\u56e0\u96c6\u7684 ES \u503c\u3002<\/p>\n<h2>2. hits \u4f4d\u7f6e\u5206\u5e03<\/h2>\n<p><strong>\u7b2c\u4e8c\u90e8\u5206 hits \u56fe\uff1a<\/strong>\u4fd7\u79f0\u6761\u5f62\u7801\u56fe\uff0c\u7528\u7ebf\u6761\u6216\u8005 hit \u6807\u8bb0\u4e86\u901a\u8def\u57fa\u56e0\u96c6\u4e2d\u6210\u5458\u51fa\u73b0\u5728\u57fa\u56e0\u6392\u5e8f\u5217\u8868\u4e2d\u7684\u4f4d\u7f6e\u3002leading edge subset \u5c31\u662f\uff080,0\uff09\u5230\u7eff\u8272\u66f2\u7ebf\u5cf0\u503c ES \u51fa\u73b0\u5bf9\u5e94\u7684\u8fd9\u90e8\u5206\u57fa\u56e0\uff08x\u8f740\u5230\u865a\u7ebf\u90a3\u90e8\u5206\uff09\u3002<\/p>\n<p>\u6240\u8c13Leading-edge subset\uff0c\u5c31\u662f\u5bf9\u5bcc\u96c6\u5f97\u5206\u8d21\u732e\u6700\u5927\u7684\u57fa\u56e0\u6210\u5458\u3002\u5982\u679cES\u5f97\u5206\u90fd\u662f\u6b63\u503c\uff08\u5982\u4e0a\u56fe\u6240\u793a\uff09\uff0c\u90a3\u4e48Leading-edge subset\u5c31\u5728\u5cf0\u503cES\u7684\u5de6\u4fa7\uff0c\u53cd\u4e4b\u5219\u5728\u53f3\u4fa7\uff08\u5e95\u90e8\u5bcc\u96c6 = A\/C \u4e0b\u8c03\u8868\u8fbe = C\u7ec4\u9ad8\u8868\u8fbe\uff09\u3002\u90a3\u4e48\u6839\u636e\u672c\u56fe\u6211\u4eec\u5f88\u5bb9\u6613\u770b\u51fa\uff0c\u8be5\u901a\u8def\u5728 A \u7ec4\u9ad8\u8868\u8fbe\u3002<\/p>\n<h2>3. \u6392\u5e8f\u7edf\u8ba1\u91cf\u5206\u5e03<\/h2>\n<p><strong>\u7b2c\u4e09\u90e8\u5206\u662f\u6392\u5e8f\u540e\u6240\u6709\u57fa\u56e0 rank \u503c\u7684\u5206\u5e03<\/strong>\uff0c\u70ed\u56fe\u7ea2\u8272\u90e8\u5206\u5bf9\u5e94\u7684\u57fa\u56e0\u5728 A \u7ec4\u9ad8\u8868\u8fbe\uff0c\u84dd\u8272\u90e8\u5206\u5bf9\u5e94\u7684\u57fa\u56e0\u5728 C\u7ec4\u9ad8\u8868\u8fbe\uff0c\u6bcf\u4e2a\u57fa\u56e0\u5bf9\u5e94\u7684\u4fe1\u566a\u6bd4\uff08Signal2noise\uff0c\u524d\u9762\u9009\u62e9\u7684\u6392\u5e8f\u503c\u8ba1\u7b97\u65b9\u5f0f\uff09\u4ee5\u7070\u8272\u9762\u79ef\u56fe\u5c55\u793a\u3002<\/p>\n<figure><img data-recalc-dims=\"1\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_y7ibNAsBwf38ZsMz3m7icicflqIPTA.png?ssl=1\" loading=\"lazy\" decoding=\"async\" alt=\"\"><\/figure>\n<figure><img data-recalc-dims=\"1\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/8_aO0nTPhtKeDqABafhYTygH1mGRHYEg.png?ssl=1\" loading=\"lazy\" decoding=\"async\" alt=\"\"><\/figure>\n<h2>Leading-edge 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