{"id":5516,"date":"2024-09-23T08:31:26","date_gmt":"2024-09-23T00:31:26","guid":{"rendered":"https:\/\/lsl.sinica.edu.tw\/Blog\/?p=5516"},"modified":"2024-09-23T08:42:14","modified_gmt":"2024-09-23T00:42:14","slug":"23-2","status":"publish","type":"post","link":"https:\/\/lsl.sinica.edu.tw\/Blog\/2024\/09\/23-2\/","title":{"rendered":"\u5229\u7528Qiagen Ingenuity Pathway Analysis\u63a2\u8a0e\u6162\u6027B\u578b\u809d\u708e\u75c5\u6bd2\uff08HBV\uff09\u611f\u67d3\u809d\u7d30\u80de\u764c\uff08HCC\uff09\u9810\u5f8c\u7684\u95dc\u4fc2"},"content":{"rendered":"\n<p class=\"has-vivid-purple-color has-text-color has-link-color wp-elements-1c8f40a3e6c1ceb8602204d38e2503fe wp-block-paragraph\"><strong>\u672c\u6587\u7d93\u8a0a\u806f\u57fa\u56e0\u6578\u4f4d\u80a1\u4efd\u6709\u9650\u516c\u53f8(\u539f\u540d:\u5275\u6e90\u751f\u6280)\u540c\u610f\u8f49\u8f09<\/strong><\/p>\n\n\n\n<h4 class=\"wp-block-heading\"><strong>\u524d\u8a00<\/strong><\/h4>\n\n\n\n<p class=\"wp-block-paragraph\">Ingenuity Pathway Analysis (IPA) \u70ba\u5c08\u9580\u89e3\u6790\u751f\u7269\u5b78\u6578\u64da\u7684\u5f37\u5927\u5de5\u5177\uff0c\u7279\u5225\u9069\u7528\u65bc\u9ad4\u5b78\u7814\u7a76\u3002\u7d93\u904e20\u591a\u5e74\u7684\u7d2f\u7a4d\u767c\u5c55\uff0cIPA \u5df2\u6210\u70ba\u7814\u7a76\u4eba\u54e1\u6df1\u5165\u7406\u89e3\u57fa\u56e0\u548c\u86cb\u767d\u8cea\u76f8\u4e92\u4f5c\u7528\u7684\u9996\u9078\u5e73\u53f0\u3002\u5b83\u4e0d\u50c5\u80fd\u63ed\u793a\u7279\u5b9a\u751f\u7269\u5b78\u904e\u7a0b\u4e2d\u7684\u5206\u5b50\u6a5f\u5236\uff0c\u9084\u80fd\u6d1e\u5bdf\u75be\u75c5\u7684\u6f5b\u5728\u6a5f\u5236\uff0c\u70ba\u514d\u75ab\u53cd\u61c9\u8207\u75be\u75c5\u9032\u5c55\u7684\u7814\u7a76\u63d0\u4f9b\u95dc\u9375\u652f\u6301\uff0c\u9032\u800c\u52a0\u901f\u6a19\u9776\u85e5\u7269\u7684\u958b\u767c\u9032\u7a0b\u3002<\/p>\n\n\n\n<h4 class=\"wp-block-heading\"><strong>\u80cc\u666f<\/strong><\/h4>\n\n\n\n<p class=\"wp-block-paragraph\">\u809d\u7d30\u80de\u764c\uff08HCC\uff09\u662f\u809d\u764c\u4e2d\u6700\u5e38\u898b\u7684\u985e\u578b\uff0c\u8207\u6162\u6027B\u578b\u809d\u708e\u75c5\u6bd2\uff08HBV\uff09\u611f\u67d3\u5bc6\u5207\u76f8\u95dc\u3002\u5728\u5168\u7403\u7bc4\u570d\u5167\uff0c85%\u4ee5\u4e0a\u7684\u809d\u764c\u75c5\u4f8b\u8207\u6162\u6027HBV\u611f\u67d3\u6709\u95dc\uff0c\u800c\u5176\u4e2d55%\u523080%\u7684HCC\u60a3\u8005\u90fd\u662f\u7531\u65bc\u6162\u6027HBV\u611f\u67d3\u6240\u5c0e\u81f4\u3002HBV\u7684\u6301\u7e8c\u611f\u67d3\u53ca\u5176\u5f15\u767c\u7684\u6162\u6027\u708e\u75c7\uff0c\u901a\u904e\u591a\u7a2e\u6a5f\u5236\uff0c\u7279\u5225\u662fHBV X\u86cb\u767d\u53ca\u8868\u89c0\u907a\u50b3\u4fee\u98fe\uff0c\u4fc3\u9032\u4e86HCC\u7684\u767c\u5c55\u3002<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">\u5728\u514d\u75ab\u53cd\u61c9\u4e2d\uff0cCD8+ T\u7d30\u80de\u626e\u6f14\u4e86\u63a7\u5236HBV\u611f\u67d3\u53ca\u6291\u5236HCC\u767c\u5c55\u7684\u91cd\u8981\u89d2\u8272\u3002\u7136\u800c\uff0c\u7531\u65bc\u514d\u75ab\u53cd\u61c9\u7684\u8907\u96dc\u6027\uff0c\u5982T\u7d30\u80de\u8017\u7aed\u7684\u73fe\u8c61\uff0c\u4f7f\u5f97\u7406\u89e3\u548c\u91dd\u5c0d\u9019\u4e9b\u514d\u75ab\u53cd\u61c9\u9032\u884c\u6cbb\u7642\u8b8a\u5f97\u5177\u6709\u6311\u6230\u6027\u3002<\/p>\n\n\n\n<h4 class=\"wp-block-heading\"><strong>\u7814\u7a76\u65b9\u6cd5<\/strong><\/h4>\n\n\n\n<p class=\"wp-block-paragraph\">\u7814\u7a76\u8005\u9996\u5148\u5f9eHCC\u60a3\u8005\u7684\u816b\u7624\u7d44\u7e54\u548c\u5468\u908a\u8840\u4e2d\u5206\u96e2\u6dcb\u5df4\u7d30\u80de\uff0c\u4e26\u5229\u7528\u6d41\u5f0f\u7d30\u80de\u5100\u548cCyToF\u8cea\u8b5c\u6cd5\u9032\u884c\u514d\u75ab\u7d30\u80de\u8868\u578b\uff0c\u8b58\u5225\u51fa\u4e0d\u540cT\u7d30\u80de\u7fa4\u9ad4\uff0c\u5c24\u5176\u662f\u816b\u7624\u99d0\u7559\u8a18\u61b6\u6027T\u7d30\u80de\uff08Trm\uff09\u548c\u8017\u7aed\u578bT\u7d30\u80de\u3002\u6b64\u5916\u7814\u7a76\u8005\u63a1\u7528\u55ae\u7d30\u80deRNA\u5b9a\u5e8f\u6280\u8853(single cell RNA-seq, scRNA-seq)\u5c0dT\u7d30\u80de\u9032\u884cRNA \u8868\u73fe\u91cf\u5206\u6790\uff0cscRNA-seq\u6578\u64da\u7d93\u904e\u6a19\u6e96\u5316\uff0ct-SNE\u548cUMAP\u964d\u7dad\u6280\u8853(dimension reduction)\u5206\u6790\uff0c\u4e26\u5229\u7528\u5206\u6790\u5de5\u5177\u9032\u884c\u7d30\u80de\u4e9e\u7fa4\u7684\u9451\u5225\u548c\u805a\u985e\u5206\u6790(cluster analysis)\u3002\u9019\u4f7f\u55ae\u7d30\u80de\u5c64\u9762\u4e0a\u6e2c\u91cf\u5dee\u7570\u57fa\u56e0\u8868\u73fe\u91cf\u66f4\u70ba\u7cbe\u78ba\uff0c\u5f9e\u800c\u66f4\u6df1\u5165\u7406\u89e3\u4e0d\u540cT\u7d30\u80de\u4e9e\u7fa4\u5728\u816b\u7624\u4e2d\u7684\u4f5c\u7528\u3002<\/p>\n\n\n\n<h4 class=\"wp-block-heading\"><strong>\u8def\u5f91\u5206\u6790<\/strong><\/h4>\n\n\n\n<p class=\"wp-block-paragraph\">\u7814\u7a76\u8005\u4f7f\u7528\u55ae\u7d30\u80deRNA\u5b9a\u5e8f\u6280\u8853\u5c0dT\u7d30\u80de\u9032\u884c\u57fa\u56e0\u8868\u9054\u5206\u6790\uff0c\u6df1\u5165\u7406\u89e3\u4e0d\u540cT\u7d30\u80de\u4e9e\u7fa4\u5728\u816b\u7624\u4e2d\u7684\u4f5c\u7528\u3002\u9664\u4e86\u57fa\u56e0\u8868\u73fe\u91cf\u5dee\u7570\u5206\u6790\uff0c\u9084\u61c9\u7528\u4e86\u57fa\u56e0\u5bcc\u96c6\u5206\u6790\uff08Gene Set Enrichment Analysis, GSEA\uff09\uff0c\u9019\u4e00\u6280\u8853\u80fd\u5e6b\u52a9\u7814\u7a76\u8005\u8b58\u5225\u5728\u4e0d\u540cT\u7d30\u80de\u4e9e\u7fa4\u4e2d\u986f\u8457\u5bcc\u96c6\u7684\u57fa\u56e0\u96c6\u548c\u751f\u7269\u5b78\u904e\u7a0b\u3002\u9664\u6b64\u4e4b\u5916\uff0c\u70ba\u4e86\u9032\u4e00\u6b65\u63a2\u7a76\u57fa\u56e0\u8868\u9054\u6578\u64da\u6240\u53c3\u8207\u7684\u8def\u5f91\u8207\u7db2\u8def\uff0c\u7814\u7a76\u8005\u9084\u4f7f\u7528\u4e86Qiagen Ingenuity Pathway Analysis (IPA) \u9032\u884c\u8def\u5f91\u548c\u7db2\u8def\u5206\u6790\u3002IPA \u7684\u7368\u7279\u512a\u52e2\u5728\u65bc\u5176\u5f37\u5927\u7684\u6578\u64da\u6574\u5408\u80fd\u529b\u548c\u9810\u6e2c\u5206\u6790\u529f\u80fd\u3002\u901a\u904e\u5206\u6790\u5df2\u77e5\u7684\u751f\u7269\u8def\u5f91\u548c\u5206\u5b50\u4ea4\u4e92\u4f5c\u7528\u7db2\u8def\uff0cIPA \u4e0d\u50c5\u80fd\u89e3\u91cb\u5be6\u9a57\u7d50\u679c\uff0c\u9084\u80fd\u63d0\u51fa\u65b0\u7684\u751f\u7269\u5b78\u5047\u8a2d\uff0c\u9019\u662f\u5176\u4ed6\u5206\u6790\u5de5\u5177\u96e3\u4ee5\u4f01\u53ca\u7684\u3002IPA \u7684\u53e6\u4e00\u5927\u512a\u52e2\u5728\u65bc\u5176\u80fd\u5920\u5354\u52a9\u7814\u7a76\u65b0\u7a4e\u4e14\u672a\u5b9a\u7fa9\u7684\u751f\u7269\u5b78\u6a5f\u5236\uff0c\u4ee5\u53ca\u8b58\u5225\u6f5b\u5728\u7684\u6cbb\u7642\u6a19\u9776\uff0c\u9019\u5c0d\u65bc\u63a8\u9032\u79d1\u5b78\u524d\u6cbf\u548c\u85e5\u7269\u958b\u767c\u81f3\u95dc\u91cd\u8981\u3002\u5728\u672c\u7814\u7a76\u4e2d\uff0cIPA \u7684\u61c9\u7528\u4f7f\u5f97\u7814\u7a76\u8005\u80fd\u5920\u7cbe\u78ba\u8b58\u5225\u51fa\u8207T\u7d30\u80de\u529f\u80fd\u53ca\u8017\u7aed\u76f8\u95dc\u7684\u95dc\u9375\u5206\u5b50\u8def\u5f91\uff0c\u4e26\u9810\u6e2c\u9019\u4e9b\u901a\u8def\u5728\u4e0d\u540cT\u7d30\u80de\u4e9e\u7fa4\u4e2d\u7684\u4f5c\u7528\uff0c\u70ba\u5f8c\u7e8c\u7684\u5be6\u9a57\u8a2d\u8a08\u548c\u7406\u8ad6\u9a57\u8b49\u63d0\u4f9b\u4e86\u53ef\u9760\u7684\u65b9\u5411\u3002<\/p>\n\n\n\n<h4 class=\"wp-block-heading\"><strong>\u7d50\u679c<\/strong><\/h4>\n\n\n\n<p class=\"wp-block-paragraph\">\u591a\u5c64\u6b21\u5206\u6790\u809d\u7d30\u80de\u764c\uff08HCC\uff09\u60a3\u8005\u514d\u75ab\u53cd\u61c9<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">\u672c\u7814\u7a76\u4e2d\u6db5\u84cb\u4e86\u591a\u7a2e\u6297\u539f\u5eab\uff0c\u5305\u62ec\u816b\u7624\u76f8\u95dc\u6297\u539f\u3001HBV\u6297\u539f\u3001disease-unrelated\u548c\u816b\u7624\u65b0\u6297\u539f(Neoantigen)\u3002\u5206\u6790\u4f86\u81ea46\u540dHCC\u60a3\u8005\u7684\u4e0d\u540c\u6a23\u672c\uff0c\u5305\u62ec\u5468\u908a\u8840\uff08PBMC\uff09\u3001\u5065\u5eb7\u809d\u81df\u7d44\u7e54\uff08HM\uff09\u548c\u816b\u7624\u7d44\u7e54\uff08HCC\uff09\u4e2d\u7684T\u7d30\u80de\u53cd\u61c9\u3002\u7814\u7a76\u63a1\u7528\u4e86\u591a\u91cdpMHC\u56db\u805a\u9ad4\u5206\u6790\u548c\u8cea\u8b5c\u7d30\u80de\u6210\u50cf\u4f86\u5b9a\u91cf\u9019\u4e9b\u6a23\u672c\u4e2d\u7684\u6297\u539f\u7279\u7570\u6027T\u7d30\u80de\u3002<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">\u572827\u4f4d\u60a3\u8005\u4e0d\u540c\u6a23\u672c\u4e2d\u91dd\u5c0d\u7279\u5b9a\u6297\u539f\u7684T\u7d30\u80de\u53cd\u61c9\u3002\u7d50\u679c\u986f\u793a\uff0c\u5728HCC\u6a23\u672c\u4e2d\uff0c\u7279\u7570\u6027T\u7d30\u80de\u7684\u6bd4\u4f8b\u660e\u986f\u9ad8\u65bcPBMC\u548cHM\u6a23\u672c\uff0c\u5c24\u5176\u662f\u91dd\u5c0dHBV\u548cAFP\u6297\u539f\u7684\u53cd\u61c9\u66f4\u70ba\u986f\u8457\u3002\u9019\u8868\u660eHCC\u816b\u7624\u5fae\u74b0\u5883\u4e2d\u5b58\u5728\u5f37\u5316\u7684\u6297\u539f\u7279\u7570\u6027\u514d\u75ab\u53cd\u61c9\u3002\u8a08\u7b97\u6240\u6709\u6a23\u672c\u6297\u539f\u8868\u73fe\u4f4d\u7f6e\u6578\u91cf\uff0c\u986f\u793a\u51fa\u816b\u7624\u6297\u539f\u548cHBV\u6297\u539f\u5728HCC\u6a23\u672c\u4e2d\u7684\u8c50\u5bcc\u5ea6\u8f03\u9ad8\uff0c\u5c24\u5176\u662f\u8207\u816b\u7624\u9032\u5c55\u76f8\u95dc\u7684\u6297\u539f\u8868\u4f4d\u3002\u76f8\u5c0d\u800c\u8a00\uff0cdisease-unrelated\u548c\u65b0\u6297\u539f\u7684\u8868\u4f4d\u6aa2\u6e2c\u8f03\u5c11\uff0c\u9019\u8868\u660e\u5b83\u5011\u5728HCC\u514d\u75ab\u53cd\u61c9\u4e2d\u7684\u89d2\u8272\u53ef\u80fd\u8f03\u5c0f\u3002\u4e0d\u540c\u7279\u6027\u6a23\u672c\u4e4b\u9593\u7684\u6297\u539f\u7279\u7570\u6027T\u7d30\u80de\u53cd\u61c9\u7684\u5dee\u7570\uff0c\u660e\u78ba\u6307\u51faHCC\u6a23\u672c\u4e2d\u91dd\u5c0d\u816b\u7624\u6297\u539f\u548cHBV\u6297\u539f\u7684T\u7d30\u80de\u53cd\u61c9\u6700\u70ba\u5f37\u70c8\u3002\u9019\u4e9b\u7d50\u679c\u5f37\u8abf\u4e86HCC\u816b\u7624\u5fae\u74b0\u5883\u4e2d\u5f37\u5316\u7684\u6297\u539f\u7279\u7570\u6027\u514d\u75ab\u53cd\u61c9\uff0c\u5c24\u5176\u662f\u91dd\u5c0dHBV\u6297\u539f\u7684\u53cd\u61c9\uff0c\u53ef\u80fd\u5728HCC\u7684\u514d\u75ab\u8abf\u63a7\u4e2d\u626e\u6f14\u95dc\u9375\u89d2\u8272\uff0c\u4e26\u63d0\u793a\u9019\u4e9b\u6297\u539f\u53ef\u4f5c\u70ba\u514d\u75ab\u6cbb\u7642\u7684\u6f5b\u5728\u76ee\u6a19\u3002<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">\u809d\u7d30\u80de\u60a3\u8005T\u7d30\u80de\u514d\u75ab\u53cd\u61c9\uff0c\u55ae\u7d30\u80de\u5206\u7fa4\u4ee5\u53ca\u529f\u80fd\u6e2c\u8a66<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">\u5c0d\u4f86\u81ea\u5468\u908a\u8840\u6db2\u3001\u809d\u81df\u7d44\u7e54\u548c\u816b\u7624\u7d44\u7e54\u4e2d\u7684T\u7d30\u80de\u9032\u884c\u4e86scRNA\u8868\u73fe\u5206\u7fa4\u5206\u6790\u3002\u7d50\u679c\u986f\u793a\uff0cHCC\u816b\u7624\u4e2d\u6d78\u6f64\u7684T\u7d30\u80de(TILs T cells)\uff08\u7279\u5225\u662f\u816b\u7624\u99d0\u7559\u8a18\u61b6T\u7d30\u80de\u548c\u90e8\u5206\u8017\u7aed\u7684T\u7d30\u80de\uff09\u8207\u5468\u908a\u8840\u6db2\u4e2d\u7684T\u7d30\u80de\u986f\u8457\u5dee\u7570\uff0c\u986f\u793a\u9019\u4e9b\u7d30\u80de\u5728\u816b\u7624\u5fae\u74b0\u5883\u4e2d\u53ef\u80fd\u5177\u6709\u7279\u5b9a\u7684\u514d\u75ab\u529f\u80fd\u3002\u9019\u4e9bT\u7d30\u80de\u4e2d\uff0c\u7279\u7570\u6027\u91dd\u5c0dHBV\u6297\u539f\u7684T\u7d30\u80de\u8868\u73fe\u51fa\u90e8\u5206\u8017\u7aed\u7684\u72c0\u614b\uff0c\u4f46\u4ecd\u4fdd\u7559\u4e86\u4e00\u5b9a\u7684\u6548\u61c9\u529f\u80fd\uff0c\u9019\u8868\u660e\u5118\u7ba1\u9577\u671f\u66b4\u9732\u65bc\u6297\u539f\uff0c\u9019\u4e9b\u7d30\u80de\u4ecd\u5177\u6709\u4e00\u5b9a\u7684\u6297\u816b\u7624\u6f5b\u529b\u3002<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">\u7814\u7a76\u9084\u8b58\u5225\u51fa\u5728HCC\u548cHBV\u611f\u67d3\u76f8\u95dc\u6297\u539f\u4e2d\u986f\u8457\u5bcc\u96c6\u7684T\u7d30\u80de\uff0c\u9019\u4e9b\u6297\u539f\u7279\u7570\u6027T\u7d30\u80de\u5728\u816b\u7624\u5fae\u74b0\u5883\u4e2d\u9ad8\u983b\u7387\u51fa\u73fe\uff0c\u4e26\u5c55\u73fe\u51fa\u9ad8\u6d3b\u6027\u7684\u514d\u75ab\u53cd\u61c9\u3002\u9019\u4e00\u767c\u73fe\u9032\u4e00\u6b65\u5f37\u8abf\u4e86\u816b\u7624\u5fae\u74b0\u5883\u4e2d\u6301\u7e8c\u7684\u6297\u539f\u9a45\u52d5T\u7d30\u80de\u53cd\u61c9\u3002<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">\u6700\u91cd\u8981\u7684\u662f\uff0c\u7814\u7a76\u767c\u73fe\u67d0\u4e9bT\u7d30\u80de\u7279\u5fb5\uff08\u5982\u8017\u7aed\u7684HBV\u7279\u7570\u6027T\u7d30\u80de\u548c\u816b\u7624\u99d0\u7559\u8a18\u61b6T\u7d30\u80de\uff09\u8207\u60a3\u8005\u7684\u81e8\u5e8a\u9810\u5f8c\u5bc6\u5207\u76f8\u95dc\uff0c\u9019\u4e9b\u7d30\u80de\u7684\u9ad8\u8c50\u5ea6\u8207\u8f03\u5dee\u7684\u7121\u75c5\u751f\u5b58\u671f\uff08DFS\uff09\u76f8\u95dc\u806f\u3002<\/p>\n\n\n\n<h4 class=\"wp-block-heading\"><strong>\u8def\u5f91\u5206\u6790<\/strong><\/h4>\n\n\n\n<p class=\"wp-block-paragraph\">\u7814\u7a76\u8005\u9032\u4e00\u6b65\u986f\u793a\u809d\u7d30\u80de\u764c\uff08HCC\uff09\u60a3\u8005\u7684\u6297\u539f\u7279\u7570\u6027T\u7d30\u80de\u53cd\u61c9\u5982\u4f55\u5f71\u97ff\u60a3\u8005\u7684\u81e8\u5e8a\u9810\u5f8c\u3002\u7814\u7a76\u901a\u904e\u5206\u6790HCC\u7d44\u7e54\u4e2d\u4e0d\u540c\u6297\u539f\uff08\u7279\u5225\u662fHBV\u6297\u539f\uff09\u7279\u7570\u6027T\u7d30\u80de\u7684\u6d3b\u6027\uff0c\u4e86\u89e3\u9019\u4e9bT\u7d30\u80de\u8207\u75be\u75c5\u9032\u5c55\u4e4b\u9593\u7684\u95dc\u806f\u3002\u7d50\u679c\u986f\u793a\uff0c\u91dd\u5c0d\u7279\u5b9a\u816b\u7624\u6297\u539f\u7684<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">T\u7d30\u80de\u5728\u816b\u7624\u5fae\u74b0\u5883\u4e2d\u7684\u8c50\u5bcc\u5ea6\u548c\u6d3b\u6027\u7a0b\u5ea6\uff0c\u8207\u60a3\u8005\u7684\u81e8\u5e8a\u7d50\u679c\u6709\u8457\u5bc6\u5207\u95dc\u806f\u3002\u5177\u9ad4\u800c\u8a00\uff0c\u8868\u73fe\u8017\u7aed\u6a19\u8a8c\u7684T\u7d30\u80de\u7fa4\u9ad4\u8207\u8f03\u5dee\u7684\u81e8\u5e8a\u9810\u5f8c\u76f8\u95dc\uff0c\u9019\u6697\u793a\u4e86\u9019\u4e9bT\u7d30\u80de\u5728\u75be\u75c5\u60e1\u5316\u4e2d\u7684\u6f5b\u5728\u89d2\u8272\u3002\u7814\u7a76\u6307\u51fa\uff0c\u5728\u4e00\u4e9b\u60a3\u8005\u4e2d\uff0c\u96d6\u7136T\u7d30\u80de\u986f\u793a\u51fa\u8017\u7aed\u7684\u72c0\u6cc1\uff0c\u4f46\u4ecd\u7136\u4fdd\u6709\u4e00\u5b9a\u7684\u6548\u61c9\u529f\u80fd\uff0c\u9019\u70ba\u6f5b\u5728\u7684\u514d\u75ab\u6cbb\u7642\u63d0\u4f9b\u4e86\u65b0\u7684\u601d\u8def\u3002<\/p>\n\n\n\n<h4 class=\"wp-block-heading\"><strong>GSEA \u8207 IPA \u7684\u6bd4\u8f03<\/strong><\/h4>\n\n\n\n<p class=\"wp-block-paragraph\">\u5728\u9019\u9805\u7814\u7a76\u4e2d\uff0cGene Set Enrichment Analysis\uff08GSEA\uff09\u4f5c\u70ba\u4e00\u7a2e\u7d93\u5e38\u4f7f\u7528\u7684\u5206\u6790\u5de5\u5177\uff0c\u80fd\u5920\u6709\u6548\u5730\u8b58\u5225\u51fa\u7279\u5b9a\u57fa\u56e0\u96c6\u5728\u4e0d\u540c\u6a23\u672c\u4e2d\u7684\u5bcc\u96c6\u60c5\u6cc1\u3002\u7136\u800c\uff0cGSEA\u7684\u5206\u6790\u7bc4\u570d\u4e3b\u8981\u9650\u65bc\u57fa\u56e0\u7684\u5bcc\u96c6\u5c64\u9762\uff0c\u7121\u6cd5\u63d0\u4f9b\u66f4\u6df1\u5165\u7684\u7db2\u8def\u6216\u8def\u5f91\u5c64\u9762\u7684\u8cc7\u8a0a\u3002GSEA\u7684\u5206\u6790\u4ef0\u8cf4\u7814\u7a76\u8005\u5236\u5b9a\u6216\u662f\u5df2\u77e5\u7684\u57fa\u56e0\u96c6(Gene set)\uff0c\u8f03\u7121\u6cd5\u6df1\u5165\u63a2\u7a76\u65b0\u7a4e\u8def\u5f91\u6216\u662f\u57fa\u56e0\u9593\u7684\u4ea4\u4e92\u4f5c\u7528\u3002\u76f8\u6bd4\u4e4b\u4e0b\uff0cIngenuity Pathway Analysis\uff08IPA\uff09\u63d0\u4f9b\u4e86\u4e00\u500b\u66f4\u70ba\u5168\u9762\u4e14\u5148\u9032\u7684\u5206\u6790\u5e73\u53f0\uff0c\u80fd\u5920\u5c07\u57fa\u56e0\u8868\u9054\u6578\u64da\u8207\u5df2\u77e5\u7684\u751f\u7269\u5b78\u7db2\u8def\u548c\u9014\u5f91\u76f8\u6574\u5408\u3002IPA\u4e0d\u50c5\u53ef\u4ee5\u986f\u793a\u51fa\u57fa\u56e0\u5728\u7279\u5b9a\u901a\u8def\u4e2d\u7684\u4f5c\u7528\uff0c\u9084\u80fd\u6df1\u5165\u63a2\u7d22\u57fa\u56e0\u4e4b\u9593\u7684\u8907\u96dc\u4ea4\u4e92\u4f5c\u7528\u548c\u8abf\u63a7\u7db2\u8def\uff0c\u5f9e\u800c\u63d0\u4f9b\u5c0d\u751f\u7269\u5b78\u904e\u7a0b\u66f4\u6df1\u5c64\u6b21\u7684\u7406\u89e3\u3002\u5728\u672c\u7bc7\u7814\u7a76\u4e2d\uff0cIPA\u7684\u61c9\u7528\u4f7f\u5f97\u7814\u7a76\u8005\u80fd\u5920\u7cbe\u78ba\u9451\u5225\u51fa\u8207HCC\u76f8\u95dc\u7684\u95dc\u9375\u9014\u5f91\u548c\u5206\u5b50\u7db2\u7d61\uff0c\u4e26\u901a\u904e\u9019\u4e9b\u9014\u5f91\u9032\u4e00\u6b65\u7406\u89e3T\u7d30\u80de\u7684\u529f\u80fd\u72c0\u614b\u548c\u5176\u5c0d\u81e8\u5e8a\u9810\u5f8c\u7684\u5f71\u97ff\u3002IPA\u7684\u512a\u52e2\u5728\u65bc\u5b83\u80fd\u5920\u63d0\u4f9b\u4e00\u500b\u6574\u9ad4\u6027\u7684\u7cfb\u7d71\u751f\u7269\u5b78\u89c0\u9ede\uff0c\u4f7f\u7814\u7a76\u8005\u66f4\u597d\u5730\u7406\u89e3\u57fa\u56e0\u4e4b\u9593\u7684\u76f8\u4e92\u4f5c\u7528\u8207\u5176\u5728\u75be\u75c5\u9032\u5c55\u4e2d\u7684\u8907\u96dc\u89d2\u8272\uff0c\u9019\u5c0d\u65bc\u958b\u767c\u65b0\u7684\u6cbb\u7642\u7b56\u7565\u548c\u7cbe\u6e96\u5316\u91ab\u7642\u65b9\u6848\u81f3\u95dc\u91cd\u8981\u3002\u6b64\u5916\uff0cIPA\u7684\u9810\u6e2c\u5206\u6790\u529f\u80fd\u9084\u80fd\u5e6b\u52a9\u7814\u7a76\u8005\u9810\u898b\u6f5b\u5728\u7684\u6cbb\u7642\u9776\u9ede\u548c\u751f\u7269\u6a19\u8a8c\u7269\uff0c\u5927\u5927\u52a0\u901f\u4e86\u5f9e\u57fa\u790e\u7814\u7a76\u5230\u81e8\u5e8a\u61c9\u7528\u7684\u8f49\u5316\u904e\u7a0b\u3002<\/p>\n\n\n\n<p class=\"wp-block-paragraph\"><strong>\u7d50\u8ad6<\/strong><\/p>\n\n\n\n<p class=\"wp-block-paragraph\">\u9019\u7bc7\u7814\u7a76\u63ed\u793a\u4e86\u5728HCC\u816b\u7624\u5fae\u74b0\u5883\u4e2d\uff0cT\u7d30\u80de\u7fa4\u9ad4\u5c55\u73fe\u51fa\u986f\u8457\u7684\u7570\u8cea\u6027\u548c\u529f\u80fd\u72c0\u614b\u3002\u7d50\u679c\u986f\u793a\uff0c\u5118\u7ba1HBV\u7279\u7570\u6027T\u7d30\u80de\u5728HCC\u60a3\u8005\u4e2d\u8868\u73fe\u51fa\u90e8\u5206\u8017\u7aed\u7684\u8868\u578b\uff0c\u4f46\u4ecd\u7136\u4fdd\u7559\u4e00\u5b9a\u7684\u6297\u816b\u7624\u6548\u61c9\u529f\u80fd\uff0c\u9019\u4e9b\u7d30\u80de\u8207\u60a3\u8005\u7684\u81e8\u5e8a\u9810\u5f8c\u5bc6\u5207\u76f8\u95dc\u3002\u7814\u7a76\u9032\u4e00\u6b65\u5f37\u8abf\u4e86\u816b\u7624\u5fae\u74b0\u5883\u4e2d\u6297\u539f\u7279\u7570\u6027T\u7d30\u80de\u7684\u8c50\u5bcc\u5ea6\u8207HCC\u9032\u5c55\u4e4b\u9593\u7684\u806f\u7e6b\uff0c\u6307\u51fa\u9019\u4e9b\u514d\u75ab\u53cd\u61c9\u5728\u809d\u764c\u7684\u767c\u5c55\u548c\u9810\u5f8c\u4e2d\u5177\u6709\u91cd\u8981\u4f5c\u7528\u3002\u9019\u4e9b\u767c\u73fe\u70ba\u672a\u4f86\u7684\u514d\u75ab\u7642\u6cd5\u63d0\u4f9b\u4e86\u65b0\u7684\u8996\u89d2\uff0c\u5c24\u5176\u662f\u5728\u8a2d\u8a08\u91dd\u5c0dHCC\u7684\u7cbe\u6e96\u6cbb\u7642\u65b9\u6848\u6642\uff0c\u53ef\u4ee5\u8003\u616e\u5982\u4f55\u512a\u5316T\u7d30\u80de\u529f\u80fd\u4ee5\u589e\u5f37\u6297\u816b\u7624\u514d\u75ab\u53cd\u61c9\u3002\u6b64\u5916\uff0c\u9019\u4e9b\u7d50\u679c\u4e5f\u5f37\u8abf\u4e86\u9032\u4e00\u6b65\u7814\u7a76T\u7d30\u80de\u5728\u816b\u7624\u5fae\u74b0\u5883\u4e2d\u884c\u70ba\u7684\u5fc5\u8981\u6027\uff0c\u70ba\u958b\u767c\u65b0\u7684\u9810\u5f8c\u6a19\u8a8c\u7269\u548c\u6cbb\u7642\u7b56\u7565\u63d0\u4f9b\u4e86\u5bf6\u8cb4\u7684\u57fa\u790e\u3002<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">Reference :<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">Non-terminally exhausted tumor-resident memory HBV-specific T cell responses correlate with relapse-free survival in hepatocellular carcinoma Cheng et al., 2021, Immunity 54, 1825\u20131840<\/p>\n\n\n\n<figure class=\"wp-block-image size-full\"><img loading=\"lazy\" decoding=\"async\" width=\"632\" height=\"852\" src=\"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-content\/uploads\/2024\/09\/\u5716\u4e00.jpg\" alt=\"\" class=\"wp-image-5518\" srcset=\"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-content\/uploads\/2024\/09\/\u5716\u4e00.jpg 632w, https:\/\/lsl.sinica.edu.tw\/Blog\/wp-content\/uploads\/2024\/09\/\u5716\u4e00-223x300.jpg 223w\" sizes=\"auto, (max-width: 632px) 100vw, 632px\" \/><\/figure>\n\n\n\n<p class=\"has-small-font-size wp-block-paragraph\">\u5716\u4e00: \u5c0d\u809d\u7d30\u80de\u764c\uff08HCC\uff09\u548c\u5065\u5eb7\u809d\u7d44\u7e54\u4e2d\u7684\u6297\u539f\u7279\u7570\u6027T\u7d30\u80de\u9032\u884c\u5ee3\u6cdb\u7684pMHC\u56db\u805a\u9ad4\u5206\u6790<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">A. \u4f7f\u7528\u591a\u91cd\u7d44\u5408pMHC\u56db\u805a\u9ad4\u7b56\u7565\uff0c\u5206\u6790\u91dd\u5c0d\u816b\u7624\u6297\u539f\uff08TA\uff09\u3001B\u578b\u809d\u708e\u75c5\u6bd2\uff08HBV\uff09\u3001 disease-nonrelated \u548c\u65b0(Neo)\u6297\u539f\u7684T\u7d30\u80de\u53cd\u61c9\uff0c\u4e26\u901a\u904eCyTOF\u8cea\u8b5c\u6aa2\u6e2c\u3002B. \u60a3\u800527\u7684T\u7d30\u80de\u5206\u6790\uff0c\u5c55\u793a\u4e86PBMC\u3001\u5065\u5eb7\u809d\u7d44\u7e54\uff08HM\uff09\u548cHCC\u6a23\u672c\u4e2d\u4e0d\u540c\u6297\u539f\u7279\u7570\u6027T\u7d30\u80de\u7684\u53cd\u61c9\u3002C. \u6aa2\u6e2c\u5230\u7684\u8868\u4f4d\u6578\u91cf\u3002HCC\u6a23\u672c\u4e2d\u7279\u7570\u6027\u8868\u4f4d\u7684\u6578\u91cf\u660e\u986f\u591a\u65bc\u5176\u4ed6\u6a23\u672c\uff0c\u7279\u5225\u662f\u91dd\u5c0dTA\u548cHBV\u6297\u539f\u3002D. \u60a3\u800546\u7684T\u7d30\u80de\u5206\u6790\uff0c\u5c55\u793a\u4e86\u4e0d\u540c\u6a23\u672c\u4e2d\u6297\u539f\u7279\u7570\u6027T\u7d30\u80de\u7684\u5206\u5e03\u3002E. \u5404\u6a23\u672c\u4e2d\u91dd\u5c0d\u4e0d\u540c\u6297\u539f\u7684\u7279\u7570\u6027T\u7d30\u80de\u7684\u8c50\u5bcc\u5ea6\u6bd4\u8f03\uff0c\u986f\u793a\u51faHCC\u6a23\u672c\u4e2dTA\u548cHBV\u7279\u7570\u6027T\u7d30\u80de\u7684\u660e\u986f\u5bcc\u96c6\u3002F. \u4e0d\u540c\u6297\u539f\u7279\u7570\u6027T\u7d30\u80de\u53cd\u61c9\u5728PBMC\u3001HM\u548cHCC\u6a23\u672c\u4e2d\u7684\u983b\u7387\uff0c\u986f\u793a\u51faHCC\u6a23\u672c\u4e2d\u91dd\u5c0dTA\u548cHBV\u6297\u539f\u7684\u5f37\u5316\u53cd\u61c9<\/p>\n\n\n\n<figure class=\"wp-block-image size-full\"><img loading=\"lazy\" decoding=\"async\" width=\"409\" height=\"545\" src=\"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-content\/uploads\/2024\/09\/\u5716\u56db.jpg\" alt=\"\" class=\"wp-image-5519\" srcset=\"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-content\/uploads\/2024\/09\/\u5716\u56db.jpg 409w, https:\/\/lsl.sinica.edu.tw\/Blog\/wp-content\/uploads\/2024\/09\/\u5716\u56db-225x300.jpg 225w\" sizes=\"auto, (max-width: 409px) 100vw, 409px\" \/><\/figure>\n\n\n\n<p class=\"has-small-font-size wp-block-paragraph\">\u5716\u56db. \u9ad8\u7dad\u5ea6\u5206\u6790\u78ba\u5b9a\u4e86\u60a3\u8005\u809d\u81df\u4e2d\u4e94\u500b\u4e0d\u540c\u7684\u6297\u539f\u7279\u7570\u6027 Trm \u7d30\u80de\u4e9e\u7fa4<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">A. \u4f7f\u7528CyTOF\u5206\u6790\u4f86\u81eaHCC\u60a3\u8005\u7684HBV\u7279\u7570\u6027T\u7d30\u80de\u7684\u8868\u578b\uff0c\u4e26\u901a\u904et-SNE\u5716\u5c55\u793a\u4e0d\u540c\u6a23\u672c\u4e2dT\u7d30\u80de\u7684\u5206\u4f48\u60c5\u6cc1\u3002B. \u5c55\u793a\u4e86\u4e0d\u540c\u6a23\u672c\uff08PBMC\u3001\u5065\u5eb7\u809d\u7d44\u7e54\uff08HM\uff09\u3001HCC\uff09\u4e2dHBV\u7279\u7570\u6027T\u7d30\u80de\u7fa4\u9ad4\u7684\u7570\u8cea\u6027\uff0c\u4e26\u5206\u6790\u4e86\u9019\u4e9bT\u7d30\u80de\u7684\u6548\u61c9\u548c\u8017\u7aed\u6a19\u8a8c\u7269\u3002C.\u57fa\u65bcT\u7d30\u80de\u4e9e\u7fa4\u5728\u4e0d\u540c\u6a23\u672c\u4e2d\u7684\u6bd4\u4f8b\uff0c\u986f\u793a\u51faHCC\u4e2dHBV\u7279\u7570\u6027T\u7d30\u80de\u7684\u8017\u7aed\u8868\u73fe\u578b\u589e\u52a0\u3002D. \u4f7f\u7528Flow Cytometry\u5206\u6790\u9032\u4e00\u6b65\u9a57\u8b49HBV\u7279\u7570\u6027T\u7d30\u80de\u7684\u8868\u578b\u5dee\u7570\uff0c\u7279\u5225\u662f\u5728HCC\u6a23\u672c\u4e2d\u8017\u7aed\u6a19\u8a8c\u7269\u7684\u8868\u73fe\u3002<\/p>\n\n\n\n<figure class=\"wp-block-image size-full\"><img loading=\"lazy\" decoding=\"async\" width=\"619\" height=\"481\" src=\"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-content\/uploads\/2024\/09\/\u5716\u516d.jpg\" alt=\"\" class=\"wp-image-5521\" srcset=\"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-content\/uploads\/2024\/09\/\u5716\u516d.jpg 619w, https:\/\/lsl.sinica.edu.tw\/Blog\/wp-content\/uploads\/2024\/09\/\u5716\u516d-300x233.jpg 300w\" sizes=\"auto, (max-width: 619px) 100vw, 619px\" \/><\/figure>\n\n\n\n<p class=\"has-small-font-size wp-block-paragraph\">\u5716\u516d. \u816b\u7624\u5167\u548c\u809d\u7d44\u7e54\u4e2d HBV \u7279\u7570\u6027 CD8+ T \u7d30\u80de\u662f\u6709\u529f\u80fd\u7684 Trm \u975e\u672b\u671fTex \u7d30\u80de<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">(A) UMAP \u4e0a\u986f\u793a\u4e86\u55ae\u4e00\u7d30\u80de\u4e2d TOX \u548c TCF7 \u57fa\u56e0\u7684\u8868\u9054\uff08\u4ee5 log10TPM \u70ba\u55ae\u4f4d\uff09\uff0c\u4e26\u4e14\u5728\u5c0f\u63d0\u7434\u5716\u4e2d\u986f\u793a\u5404\u7fa4\u4e4b\u9593\u7684\u6bd4\u8f03\u3002(B) GSEA \u5206\u6790\u56db\u7a2e\u4e0d\u540c\u5dee\u7570\u8868\u73fe\u91cf\u7684\u7279\u5fb5\u57fa\u56e0\u7d44cluster 6 vs other cluster\uff08\u4e0a\uff09\uff0c cluster 8 \u8207other cluster\uff08\u4e2d\uff09\uff0c\u6216cluster 6 \u8207 cluster 8\uff08\u4e0b\uff09\uff0c\u5728terminal Tex cells \u57fa\u56e0\u7279\u5fb5\u88e1\u6bcf\u500b\u7684\u6a19\u6e96\u5316\u5bcc\u96c6\u5206\u6578 (NES) \u548c FDR q \u503c\u3002(C) \u706b\u5c71\u5716\u986f\u793acluster 6 \u6216 cluster 8 \u4e2d\u7684Tetra<sup>+<\/sup>\u7d30\u80de\u8207other clusters\u7684\u6240\u6709\u7d30\u80de\u76f8\u6bd4\u57fa\u56e0\u8868\u73fe\u7684\u500d\u6578\u8b8a\u5316\u3002\u9078\u5b9a\u7684\u57fa\u56e0\u88ab\u7a81\u51fa\u986f\u793a\u70ba\u5f69\u8272\u3002(D) cluster 6 \u548c cluster 8 \u4e2d\u7684\u6297\u539f\u7279\u7570\u6027 T \u7d30\u80de\u8207\u4f86\u81eaother cluster\u7684\u7d30\u80de\u4e4b\u9593\u9078\u5b9a\u57fa\u56e0\u7684 mRNA \u8868\u73fe\u91cf\u4ee5\u5c0f\u63d0\u7434\u5716\u5448\u73fe\u3002(E) cluster 6 \u6216 cluster 8 &nbsp;\u4e2d\u7684\u56db\u805a\u9ad4&nbsp;<sup>+<\/sup>&nbsp;\u7d30\u80de\u8207other cluster\u4e2d\u6240\u6709\u7d30\u80de\u7684\u6bd4\u8f03\u986f\u793a\u70ba\u96f7\u9054\u5716\uff0c\u986f\u793a \u2013log\uff08p value\uff09\u548c \u524d30\u540d\u8def\u5f91 \u7684 Z \u5206\u6578\u3002<\/p>\n<div class=\"pld-like-dislike-wrap pld-template-1\">\r\n    <div class=\"pld-like-wrap  pld-common-wrap\">\r\n    <a href=\"javascript:void(0)\" class=\"pld-like-trigger pld-like-dislike-trigger  \" title=\"\u8b9a\" data-post-id=\"5516\" data-trigger-type=\"like\" data-restriction=\"ip\" data-already-liked=\"0\">\r\n                        <i class=\"fas fa-thumbs-up\"><\/i>\r\n                <\/a>\r\n    <span class=\"pld-like-count-wrap pld-count-wrap\">0    <\/span>\r\n<\/div><\/div>","protected":false},"excerpt":{"rendered":"<p>\u672c\u6587\u7d93\u8a0a\u806f\u57fa\u56e0\u6578\u4f4d\u80a1\u4efd\u6709\u9650\u516c\u53f8(\u539f\u540d:\u5275\u6e90\u751f\u6280)\u540c\u610f\u8f49\u8f09 \u524d\u8a00 Ingenuity Pathway Analy&hellip;<\/p>\n","protected":false},"author":2,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[8],"tags":[46],"class_list":["post-5516","post","type-post","status-publish","format-standard","hentry","category-databases","tag-ipa"],"_links":{"self":[{"href":"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-json\/wp\/v2\/posts\/5516","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-json\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-json\/wp\/v2\/comments?post=5516"}],"version-history":[{"count":6,"href":"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-json\/wp\/v2\/posts\/5516\/revisions"}],"predecessor-version":[{"id":5526,"href":"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-json\/wp\/v2\/posts\/5516\/revisions\/5526"}],"wp:attachment":[{"href":"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-json\/wp\/v2\/media?parent=5516"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-json\/wp\/v2\/categories?post=5516"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/lsl.sinica.edu.tw\/Blog\/wp-json\/wp\/v2\/tags?post=5516"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}