{"id":66359,"date":"2026-11-11T17:03:08","date_gmt":"2026-11-11T09:03:08","guid":{"rendered":"https:\/\/www.biocloudservice.com\/wordpress\/?p=66359"},"modified":"2026-11-11T17:03:08","modified_gmt":"2026-11-11T09:03:08","slug":"single-cell-algorithm-boundaries-02-virtual-perturbation","status":"publish","type":"post","link":"https:\/\/www.biocloudservice.com\/wordpress\/single-cell-algorithm-boundaries-02-virtual-perturbation\/","title":{"rendered":"scTenifoldKnk\u4e0e\u865a\u62df\u6280\u672f\u600e\u4e48\u63a8\u8350\uff1f\u5148\u8bb2\u524d\u63d0\u548c\u5c40\u9650\uff08\u7b97\u6cd5\u8fb9\u754c2\/3\uff09"},"content":{"rendered":"<style>#articleContent{max-width:900px;margin:auto;color:#26364a;font-size:17px;line-height:1.85;overflow-wrap:anywhere}#articleContent p{margin:17px 0}#articleContent h2{font-size:25px;line-height:1.5;color:#0868dc;border-left:5px solid #ff9b32;padding-left:14px;margin:38px 0 18px}#articleContent h3{font-size:19px;color:#174c83;margin:25px 0 8px}#articleContent 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class=\"ref\" href=\"https:\/\/pmc.ncbi.nlm.nih.gov\/articles\/PMC9058914\/\">[1]<\/a><\/p>\n<p>\u552e\u524d\u8981\u5206\u5f00\u6838\u5bf9\u4e09\u5c42\u6761\u4ef6\uff1a\u7b2c\u4e00\uff0c\u7b97\u6cd5\u672c\u8eab\u9700\u8981\u4ec0\u4e48\uff1b\u7b2c\u4e8c\uff0c\u57fa\u56e0ID\u3001\u529f\u80fd\u6ce8\u91ca\u548c\u914d\u5957\u6570\u636e\u5e93\u662f\u5426\u652f\u6301\u8be5\u7269\u79cd\uff1b\u7b2c\u4e09\uff0c\u6211\u4eec\u5b9e\u9645\u90e8\u7f72\u7684\u7248\u672c\u6216\u5c01\u88c5\u670d\u52a1\u652f\u6301\u54ea\u4e9b\u8f93\u5165\u3002\u82e5\u9650\u5236\u6765\u81ea\u672c\u516c\u53f8\u7684\u5b9e\u73b0\uff0c\u5e94\u8bf4\u201c\u5f53\u524d\u8fd9\u5957\u670d\u52a1\u652f\u6301\u8303\u56f4\u662f\u2026\u2026\u201d\uff0c\u4e0d\u8981\u6539\u5199\u6210\u7b97\u6cd5\u7684\u666e\u904d\u9650\u5236\u3002<\/p>\n<h2>\u4e8c\u3001scTenifoldKnk\uff1a\u770b\u61c2\u524d\u63d0\uff0c\u624d\u80fd\u8bb2\u6e05\u4ef7\u503c<\/h2>\n<table class=\"stack-table\">\n<thead>\n<tr>\n<th 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href=\"https:\/\/github.com\/cailab-tamu\/scTenifoldKnk\/blob\/master\/R\/scTenifoldKnk.R\">[3]<\/a><\/p>\n<h2>\u4e09\u3001\u201c500\u4e2a\u7ec6\u80de\u201d\u5230\u5e95\u5c5e\u4e8e\u54ea\u4e00\u79cd\u6570\u5b57\uff1f<\/h2>\n<p>\u5f53\u524d\u5b98\u65b9\u4ed3\u5e93\u8bf4\u660e\uff0c\u9ed8\u8ba4nc_nCells=500\u8868\u793a\u6bcf\u6b21\u5efa\u7f51\u62bd\u53d6\u7684\u7ec6\u80de\u6570\uff1b\u540c\u65f6\u5efa\u8bae\u6309\u5355\u4e00\u7ec6\u80de\u7c7b\u578b\u6216\u72b6\u6001\u5efa\u7f51\uff0c\u7ea6500\u4e2a\u7ec6\u80de\u6216\u66f4\u591a\u3002<strong>\u62bd\u6837\u53c2\u6570\u3001\u4f5c\u8005\u5b9e\u8df5\u5efa\u8bae\u548c\u9879\u76ee\u53ef\u9760\u6027\uff0c\u662f\u4e09\u4e2a\u5c42\u6b21\u3002<\/strong>\u8fd9\u4e9b\u4fe1\u606f\u6838\u5bf9\u4e8e2026\u5e7411\u67085\u65e5\uff0c\u6b63\u5f0f\u5206\u6790\u987b\u8bb0\u5f55\u5177\u4f53\u7248\u672c\u3002<a class=\"ref\" href=\"https:\/\/github.com\/cailab-tamu\/scTenifoldKnk\">[2]<\/a><\/p>\n<p>\u4e0d\u80fd\u628a\u5b83\u7b80\u5316\u6210\u201c499\u7edd\u5bf9\u4e0d\u884c\u3001500\u4e00\u5b9a\u53ef\u9760\u201d\uff0c\u4e5f\u4e0d\u80fd\u56e0\u4e3a\u8c03\u5c0f\u53c2\u6570\u80fd\u8dd1\uff0c\u5c31\u5ba3\u79f0\u4f4e\u6570\u91cf\u4e9a\u7fa4\u540c\u6837\u53ef\u9760\u3002\u8fd8\u8981\u770b\u68c0\u6d4b\u6df1\u5ea6\u3001\u72b6\u6001\u6df7\u5408\u3001\u76ee\u6807\u57fa\u56e0\u4fe1\u53f7\u3001\u4e2a\u4f53\u6784\u6210\u4e0e\u91cd\u590d\u62bd\u6837\u540e\u7684\u7a33\u5b9a\u6027\u3002\u8fd9\u91cc\u5173\u6ce8\u7684\u662f\u7528\u4e8e\u5efa\u7f51\u7684\u76ee\u6807\u7ec6\u80de\uff0c\u4e0d\u662f\u6574\u4e2a\u5bf9\u8c61\u7684\u7ec6\u80de\u603b\u6570\u3002<\/p>\n<p>\u524d\u7aef\u53ef\u4ee5\u628a\u4e0d\u8db3\u60c5\u51b5\u4ea4\u7ed9\u5206\u6790\u8001\u5e08\u505a\u5c0f\u8303\u56f4\u53ef\u884c\u6027\u8bc4\u4f30\uff1a\u67e5\u770b\u4fdd\u7559\u57fa\u56e0\u548c\u7ec6\u80de\u3001\u6bd4\u8f83\u4e0d\u540c\u968f\u673a\u79cd\u5b50\u6216\u5408\u7406\u62bd\u6837\u8bbe\u7f6e\u3001\u6838\u5bf9\u5df2\u77e5\u57fa\u56e0\u4e0e\u5916\u90e8\u7ed3\u679c\u3002\u82e5\u6392\u5e8f\u53d8\u5316\u5f88\u5927\uff0c\u5e94\u7f29\u5c0f\u89e3\u91ca\u8303\u56f4\u6216\u505c\u6b62\u63a8\u8fdb\uff1b\u91cd\u590d\u62bd\u6837\u53ea\u80fd\u68c0\u67e5\u8ba1\u7b97\u7a33\u5b9a\u6027\uff0c\u4e0d\u80fd\u66ff\u4ee3\u751f\u7269\u5b66\u91cd\u590d\u3002<a class=\"ref\" href=\"https:\/\/github.com\/cailab-tamu\/scTenifoldKnk\">[2]<\/a><\/p>\n<h2>\u56db\u3001\u5176\u4ed6\u201c\u865a\u62df\u65b9\u6cd5\u201d\uff0c\u524d\u63d0\u5e76\u4e0d\u4e00\u6837<\/h2>\n<table class=\"stack-table\">\n<thead>\n<tr>\n<th scope=\"col\">\u65b9\u6cd5\u793a\u4f8b<\/th>\n<th scope=\"col\">\u9700\u8981\u5148\u786e\u8ba4\u4ec0\u4e48<\/th>\n<th scope=\"col\">\u5e38\u89c1\u8bef\u533a\u4e0e\u5904\u7406<\/th>\n<\/tr>\n<\/thead>\n<tbody>\n<tr>\n<td data-label=\"\u65b9\u6cd5\u793a\u4f8b\">CellOracle\uff1a\u8f6c\u5f55\u56e0\u5b50\u6270\u52a8<\/td>\n<td data-label=\"\u9700\u8981\u5148\u786e\u8ba4\u4ec0\u4e48\">\u9700\u8981\u9884\u5904\u7406\u8868\u8fbe\u6570\u636e\uff0c\u4ee5\u53ca\u5339\u914d\u7269\u79cd\u548c\u7ec6\u80de\u80cc\u666f\u7684\u57fa\u7840\u8c03\u63a7\u7f51\u7edc\u3001motif\u7b49\u8d44\u6e90\uff1b\u5b98\u65b9\u63d0\u4f9b\u90e8\u5206\u9884\u5efa\u7f51\u7edc\uff0c\u4e5f\u652f\u6301\u81ea\u5efa\u3002<\/td>\n<td data-label=\"\u5e38\u89c1\u8bef\u533a\u4e0e\u5904\u7406\">\u4e0d\u80fd\u8bf4\u201c\u5fc5\u987b\u6709\u81ea\u5df1\u7684ATAC\u624d\u80fd\u505a\u201d\uff0c\u4e5f\u4e0d\u80fd\u8bf4\u201c\u968f\u4fbf\u6362\u57fa\u56e0\u540d\u5373\u53ef\u652f\u6301\u4efb\u610f\u7269\u79cd\u201d\u3002\u5148\u6838\u5bf9\u652f\u6301\u8d44\u6e90\u3001\u76ee\u6807\u662f\u5426\u9002\u5408\u8f6c\u5f55\u56e0\u5b50\u6270\u52a8\uff0c\u4ee5\u53ca\u7ec6\u80de\u72b6\u6001\u8986\u76d6\u3002<\/td>\n<\/tr>\n<tr>\n<td data-label=\"\u65b9\u6cd5\u793a\u4f8b\">CMap\/LINCS\uff1a\u8868\u8fbe\u7b7e\u540d\u5339\u914d<\/td>\n<td data-label=\"\u9700\u8981\u5148\u786e\u8ba4\u4ec0\u4e48\">\u9700\u8981\u5b9a\u4e49\u6e05\u695a\u3001\u65b9\u5411\u53ef\u4fe1\u7684\u4e0a\u8c03\u548c\u4e0b\u8c03\u8868\u8fbe\u7b7e\u540d\uff0c\u5e76\u6838\u5bf9\u53c2\u8003\u6270\u52a8\u7684\u7ec6\u80de\u7cfb\u3001\u5242\u91cf\u3001\u65f6\u95f4\u53ca\u8986\u76d6\u3002<\/td>\n<td data-label=\"\u5e38\u89c1\u8bef\u533a\u4e0e\u5904\u7406\">1v1\u4ea7\u751f\u7684\u5dee\u5f02\u7b7e\u540d\u53ef\u80fd\u6df7\u6709\u4e2a\u4f53\u6548\u5e94\u3002\u5148\u8bc4\u4f30\u7b7e\u540d\u7a33\u5065\u6027\uff0c\u7ed3\u679c\u53ea\u4f5c\u4e3a\u5019\u9009\u6270\u52a8\u6216\u836f\u7269\u7ebf\u7d22\uff0c\u4e0d\u80fd\u627f\u8bfa\u4e34\u5e8a\u7597\u6548\u3002<\/td>\n<\/tr>\n<tr>\n<td data-label=\"\u65b9\u6cd5\u793a\u4f8b\">\u7ed3\u6784\u865a\u62df\u7b5b\u9009\uff1a\u4ee5AutoDock Vina\u4e3a\u4f8b<\/td>\n<td data-label=\"\u9700\u8981\u5148\u786e\u8ba4\u4ec0\u4e48\">\u9700\u8981\u53ef\u9760\u7684\u9776\u86cb\u767d\u7ed3\u6784\u3001\u5019\u9009\u5206\u5b50\u3001\u51c6\u5907\u597d\u7684\u53d7\u4f53\/\u914d\u4f53\u548c\u5408\u7406\u641c\u7d22\u533a\u57df\u3002<\/td>\n<td data-label=\"\u5e38\u89c1\u8bef\u533a\u4e0e\u5904\u7406\">\u5355\u7ec6\u80de\u77e9\u9635\u672c\u8eab\u4e0d\u662f\u5b8c\u6574\u5bf9\u63a5\u8f93\u5165\u3002\u5148\u8865\u9f50\u7ed3\u6784\u4e0e\u7b5b\u9009\u8bbe\u8ba1\uff1b\u5bf9\u63a5\u8bc4\u5206\u4e0d\u80fd\u76f4\u63a5\u5f53\u4f5c\u5b9e\u6d4b\u7ed3\u5408\u5f3a\u5ea6\u6216\u836f\u6548\u3002<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<p>CellOracle\u3001CMap\u548c\u5bf9\u63a5\u5206\u522b\u4f9d\u8d56\u7f51\u7edc\u5148\u9a8c\u3001\u8868\u8fbe\u6270\u52a8\u53c2\u8003\u548c\u5206\u5b50\u7ed3\u6784\uff0c\u4e0d\u80fd\u628a\u67d0\u4e00\u65b9\u6cd5\u7684\u7269\u79cd\u6216\u7ec6\u80de\u6570\u6761\u4ef6\u5957\u5230\u6240\u6709\u201c\u865a\u62df\u6280\u672f\u201d\u4e0a\u3002<a class=\"ref\" href=\"https:\/\/morris-lab.github.io\/CellOracle.documentation\/tutorials\/index.html\">[4]<\/a><a class=\"ref\" href=\"https:\/\/github.com\/morris-lab\/CellOracle\">[5]<\/a><a class=\"ref\" href=\"https:\/\/www.broadinstitute.org\/connectivity-map-cmap\">[6]<\/a><a class=\"ref\" href=\"https:\/\/clue.io\/cmapPy\/index.html\">[7]<\/a><a class=\"ref\" href=\"https:\/\/autodock-vina.readthedocs.io\/en\/latest\/docking_basic.html\">[8]<\/a><\/p>\n<h2>\u4e94\u3001\u524d\u7aef\u63a8\u8350\u524d\uff0c\u5fc5\u987b\u62ff\u5230\u76845\u9879\u4fe1\u606f<\/h2>\n<p>1. \u5177\u4f53\u7b97\u6cd5\u4e0e\u7248\u672c\uff0c\u4e0d\u80fd\u53ea\u5199\u201cAI\u9884\u6d4b\u201d\u6216\u201c\u4e09\u865a\u62df\u201d\u3002<br \/>2. \u7269\u79cd\u3001\u57fa\u56e0ID\u3001\u76ee\u6807\u7ec6\u80de\u53ca\u5404\u6837\u672c\u7684\u6709\u6548\u7ec6\u80de\u6570\u3002<br \/>3. \u76ee\u6807\u57fa\u56e0\u3001\u57fa\u7ebf\u80cc\u666f\u6216\u836f\u7269\u7b5b\u9009\u76ee\u6807\u662f\u4ec0\u4e48\u3002<br \/>4. \u9700\u8981\u7684\u53c2\u8003\u6570\u636e\u5e93\u3001\u7f51\u7edc\u3001\u7b7e\u540d\u6216\u7ed3\u6784\u662f\u5426\u9f50\u5907\u3002<br \/>5. \u5ba2\u6237\u63a5\u53d7\u4ec0\u4e48\u4ea4\u4ed8\u8fb9\u754c\uff0c\u80fd\u505a\u54ea\u4e9b\u540e\u7eed\u9a8c\u8bc1\u3002<\/p>\n<blockquote><p>\u201c\u8fd9\u7c7b\u5206\u6790\u7684\u4ef7\u503c\u662f\u5e2e\u52a9\u60a8\u4f18\u5148\u9009\u62e9\u503c\u5f97\u9a8c\u8bc1\u7684\u57fa\u56e0\u6216\u5206\u5b50\u3002\u6211\u4eec\u5148\u6838\u5bf9\u76ee\u6807\u7ec6\u80de\u3001\u57fa\u56e0\u4fe1\u53f7\u548c\u53c2\u8003\u8d44\u6e90\uff0c\u518d\u5224\u65ad\u9002\u5408\u54ea\u79cd\u65b9\u6cd5\u3002\u53ef\u4ee5\u4ea4\u4ed8\u5019\u9009\u3001\u4f9d\u636e\u548c\u7a33\u5b9a\u6027\u68c0\u67e5\uff0c\u4f46\u9884\u6d4b\u7ed3\u679c\u4e0d\u80fd\u4ee3\u66ff\u771f\u5b9e\u6572\u9664\u3001\u529f\u80fd\u6216\u836f\u6548\u5b9e\u9a8c\u3002\u201d<\/p><\/blockquote>\n<h2>\u8d44\u6599\u4f9d\u636e<\/h2>\n<p>\u5b98\u65b9\u53c2\u6570\u4e0e\u63a5\u53e3\u53ef\u80fd\u66f4\u65b0\uff1b\u5b9e\u9645\u627f\u63a5\u65f6\u9700\u6838\u5bf9\u91c7\u7528\u7248\u672c\u3002\u6587\u4e2d\u7684\u9879\u76ee\u5206\u7ea7\u548c\u5904\u7406\u987a\u5e8f\u4e3a\u6c9f\u901a\u5efa\u8bae\u3002<\/p>\n<ol>\n<li><a href=\"https:\/\/pmc.ncbi.nlm.nih.gov\/articles\/PMC9058914\/\">scTenifoldKnk \u539f\u59cb\u8bba\u6587\uff1a\u8bbe\u8ba1\u3001\u7269\u79cd\u4e0e\u5c40\u9650<\/a><\/li>\n<li><a href=\"https:\/\/github.com\/cailab-tamu\/scTenifoldKnk\">scTenifoldKnk \u5b98\u65b9\u4ed3\u5e93\uff1a\u5f53\u524d\u53c2\u6570\u5efa\u8bae\u4e0e\u5c40\u9650<\/a><\/li>\n<li><a href=\"https:\/\/github.com\/cailab-tamu\/scTenifoldKnk\/blob\/master\/R\/scTenifoldKnk.R\">scTenifoldKnk \u5b98\u65b9\u51fd\u6570\u8f93\u5165\u4e0e\u53c2\u6570<\/a><\/li>\n<li><a href=\"https:\/\/morris-lab.github.io\/CellOracle.documentation\/tutorials\/index.html\">CellOracle \u5b98\u65b9\u6559\u7a0b\uff1a\u8f93\u5165\u3001\u57fa\u7840\u7f51\u7edc\u4e0e\u6270\u52a8<\/a><\/li>\n<li><a href=\"https:\/\/github.com\/morris-lab\/CellOracle\">CellOracle \u5b98\u65b9\u652f\u6301\u7269\u79cd\u4e0e\u53c2\u8003\u57fa\u56e0\u7ec4<\/a><\/li>\n<li><a href=\"https:\/\/www.broadinstitute.org\/connectivity-map-cmap\">Broad Institute\uff1aConnectivity Map \u7684\u7528\u9014<\/a><\/li>\n<li><a href=\"https:\/\/clue.io\/cmapPy\/index.html\">CLUE\uff1a\u6270\u52a8\u6570\u636e\u7684\u7ec6\u80de\u7cfb\u3001\u5242\u91cf\u4e0e\u8986\u76d6<\/a><\/li>\n<li><a href=\"https:\/\/autodock-vina.readthedocs.io\/en\/latest\/docking_basic.html\">AutoDock Vina\uff1a\u53d7\u4f53\u3001\u914d\u4f53\u4e0e\u5bf9\u63a5\u51c6\u5907<\/a><\/li>\n<\/ol>\n<p>\u5982\u9700\u5224\u65ad\u73b0\u6709\u6570\u636e\u9002\u5408\u54ea\u4e9b\u5206\u6790\uff0c\u53ef\u5148\u5411\u4e91\u751f\u4fe1\u63d0\u4f9b\u7814\u7a76\u95ee\u9898\u3001\u7269\u79cd\u3001\u6837\u672c\u5206\u7ec4\u4e0e\u76ee\u6807\u7ec6\u80de\u7684\u6570\u636e\u6982\u51b5\u3002<\/p>\n<p><a class=\"cta\" data-ysx-event=\"contact_click\" href=\"https:\/\/work.weixin.qq.com\/kfid\/kfcb05492f29d4d6064\">\u8054\u7cfb\u4e91\u751f\u4fe1\uff0c\u8bc4\u4f30\u5206\u6790\u524d\u63d0\u4e0e\u8303\u56f4<\/a><\/p>\n<\/div>\n","protected":false},"excerpt":{"rendered":"<p>\u533a\u5206scTenifoldKnk\u7684\u7269\u79cd\u9002\u7528\u6027\u3001\u7ec6\u80de\u6570\u5efa\u8bae\u4e0e\u9ed8\u8ba4\u53c2\u6570\uff0c\u8bf4\u660e\u76ee\u6807\u57fa\u56e0\u3001\u7ec6\u80de\u72b6\u6001\u3001\u7248\u672c\u548c\u9a8c\u8bc1\u8981\u6c42\uff1b\u5e76\u5bf9\u7167CellOracle\u3001CMap\u53ca\u7ed3\u6784\u865a\u62df\u7b5b\u9009\u7684\u4e0d\u540c\u524d\u63d0\u3002<\/p>\n","protected":false},"author":1,"featured_media":66358,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_feature_clip_id":0,"_jetpack_memberships_contains_paid_content":false,"footnotes":"","jetpack_post_was_ever_published":false},"categories":[1,71],"tags":[90,477,174,478],"class_list":["post-66359","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-part","category-single-cell","tag-90","tag-477","tag-174","tag-478"],"jetpack_sharing_enabled":true,"jetpack_featured_media_url":"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2026\/11\/algorithm-presales-series-20261105-part-02-algorithm-poster.png?fit=1200%2C680&ssl=1","_links":{"self":[{"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/posts\/66359","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/comments?post=66359"}],"version-history":[{"count":1,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/posts\/66359\/revisions"}],"predecessor-version":[{"id":66398,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/posts\/66359\/revisions\/66398"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/media\/66358"}],"wp:attachment":[{"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/media?parent=66359"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/categories?post=66359"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/tags?post=66359"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}