{"id":25051,"date":"2024-01-18T16:36:05","date_gmt":"2024-01-18T08:36:05","guid":{"rendered":"http:\/\/www.biocloudservice.com\/wordpress\/?p=25051"},"modified":"2024-01-18T16:36:06","modified_gmt":"2024-01-18T08:36:06","slug":"%e6%af%94blast%e8%bf%98%e4%bc%98%e7%a7%80%e7%9a%84%e5%ba%8f%e5%88%97%e6%af%94%e5%af%b9%e5%b7%a5%e5%85%b7%ef%bc%9fhmmer%e6%9d%a5%e4%ba%86","status":"publish","type":"post","link":"http:\/\/www.biocloudservice.com\/wordpress\/?p=25051","title":{"rendered":"\u6bd4blast\u8fd8\u4f18\u79c0\u7684\u5e8f\u5217\u6bd4\u5bf9\u5de5\u5177\uff1fHMMER\u6765\u4e86"},"content":{"rendered":"

<\/a>\u5728\u65e5\u5e38\u7684\u751f\u4fe1\u5206\u6790\u4e2d\uff0c\u6211\u4eec\u5e38\u89c1\u7684\u5e8f\u5217\u6bd4\u5bf9\u5de5\u5177\u57fa\u672c\u90fd\u662fblast\u8fdb\u884c\u6bd4\u5bf9\u3002\u4f46\u662f\u4ece\u7814\u7a76\u57fa\u56e0\u529f\u80fd\u7684\u89d2\u5ea6\u6765\u8bb2\uff0cHMMER\u7684\u51c6\u786e\u6027\u66f4\u9ad8\u3002\u800c\u4e14HMMER\u5728\u5904\u7406\u5927\u89c4\u6a21\u5e8f\u5217\u6570\u636e\u65f6\u8868\u73b0\u51fa\u8272\u3002\u5b83\u91c7\u7528\u4e86\u4f18\u5316\u7684\u7b97\u6cd5\u548c\u6570\u636e\u7ed3\u6784\uff0c\u80fd\u591f\u5feb\u901f\u6bd4\u5bf9\u5927\u91cf\u5e8f\u5217\u6570\u636e\uff0c\u8282\u7701\u65f6\u95f4\u548c\u8ba1\u7b97\u8d44\u6e90\u3002\u770b\u5230\u8fd9\u91cc\uff0c\u662f\u4e0d\u662f\u5f88\u60f3\u77e5\u9053\u5982\u4f55\u4f7f\u7528HMMER\u4e86\u3002\u522b\u7740\u6025\uff0c\u5c0f\u679c\u5e26\u4f60\u6765\u5b66\u4e60\uff01<\/p>\n

\u4e00\u3001\u4ec0\u4e48\u662fHMMER\uff1f<\/h2>\n

HMMER\u662f\u4e00\u79cd\u5e38\u7528\u7684\u5e8f\u5217\u6bd4\u5bf9\u5de5\u5177\uff0c\u5b83\u662f\u57fa\u4e8e\u9690\u9a6c\u5c14\u53ef\u592b\u6a21\u578b\uff08Hidden Markov Model\uff0cHMM\uff09\u7684\u7b97\u6cd5\u3002HMMER\u53ef\u4ee5\u7528\u4e8e\u6bd4\u5bf9\u4e0d\u540c\u7c7b\u578b\u7684\u751f\u7269\u5e8f\u5217\uff0c\u5305\u62ec\u86cb\u767d\u8d28\u5e8f\u5217\u548c\u6838\u9178\u5e8f\u5217\u3002\u5b83\u53ef\u4ee5\u6839\u636e\u4e0d\u540c\u7684\u751f\u7269\u4fe1\u606f\u5b66\u95ee\u9898\u8fdb\u884c\u5b9a\u5236\uff0c\u4ece\u800c\u9002\u5e94\u5404\u79cd\u5206\u6790\u9700\u6c42\u3002<\/p>\n

\u4e0e\u6b64\u540c\u65f6\uff0cHMMER\u53ef\u4ee5\u5229\u7528\u9690\u9a6c\u5c14\u53ef\u592b\u6a21\u578b\u8fdb\u884c\u6bd4\u5bf9\uff0c\u80fd\u591f\u66f4\u597d\u5730\u5904\u7406\u590d\u6742\u7684\u5e8f\u5217\u95f4\u5173\u7cfb\uff0c\u63d0\u4f9b\u8f83\u4e3a\u51c6\u786e\u7684\u5339\u914d\u7ed3\u679c\u3002\u5b83\u80fd\u591f\u53d1\u73b0\u8f83\u4e3a\u76f8\u4f3c\u7684\u5e8f\u5217\u7247\u6bb5\uff0c\u6355\u83b7\u66f4\u591a\u7684\u751f\u7269\u4fe1\u606f\u3002<\/p>\n

\u5f53\u7136\uff0cHMMER\u4e0d\u4ec5\u53ef\u4ee5\u8fdb\u884c\u5e8f\u5217\u6bd4\u5bf9\uff0c\u8fd8\u80fd\u591f\u8fdb\u884c\u5e8f\u5217\u5206\u7c7b\u3001\u5e8f\u5217\u6ce8\u91ca\u548c\u7279\u5f81\u9884\u6d4b\u7b49\u4efb\u52a1\u3002\u5b83\u63d0\u4f9b\u4e86\u4e30\u5bcc\u7684\u529f\u80fd\u548c\u5de5\u5177\uff0c\u5e2e\u52a9\u7814\u7a76\u8005\u6df1\u5165\u5206\u6790\u548c\u7406\u89e3\u751f\u7269\u5e8f\u5217\u7684\u7279\u5f81\u548c\u529f\u80fd\u3002<\/p>\n

\u4e8c\u3001\u5982\u4f55\u4f7f\u7528HMMER?<\/h2>\n

\u9996\u5148\u6211\u4eec\u53ef\u4ee5\u5728pfam\u6570\u636e\u5e93\u641c\u7d22p450\u86cb\u767d\u8d28\uff0cp450\u86cb\u767d\u662f\u4e00\u7c7b\u5b58\u5728\u4e8e\u751f\u7269\u4f53\u4e2d\u3001\u5177\u6709\u91cd\u8981\u751f\u7269\u50ac\u5316\u529f\u80fd\u7684\u9176\u3002\u5b83\u4eec\u53c2\u4e0e\u7ec6\u80de\u5185\u591a\u79cd\u5316\u5b66\u53cd\u5e94\uff0c\u5305\u62ec\u4ee3\u8c22\u5185\u6e90\u6027\u7269\u8d28\u548c\u5916\u6e90\u6027\u836f\u7269\u3001\u5408\u6210\u751f\u7406\u6d3b\u6027\u7269\u8d28\u4ee5\u53ca\u89e3\u6bd2\u7b49\u8fc7\u7a0b\u3002\u5728\u641c\u7d22\u4e4b\u540e\uff0c\u5f97\u5230\u5982\u4e0b\u7684\u7ed3\u679c\uff0c\u6211\u4eec\u70b9\u51fbAccession\u4e3aPF00067\u7684\u86cb\u767d\u3002<\/p>\n

<\/a> <\/p>\n

\u63a5\u7740\u70b9\u51fbAlignments\u6309\u94ae\uff0c\u6765\u5230\u6bd4\u5bf9\u9875\u9762\uff0c\u63a5\u7740\u6211\u4eec\u9009\u62e9stockholm\u683c\u5f0f\uff0c\u70b9\u51fbGenerate\u6309\u94ae\u3002\u6b64\u65f6\uff0c\u9875\u9762\u5c06\u4f1a\u81ea\u52a8\u4e0b\u8f7d\u4e00\u4e2a\u591a\u5e8f\u5217\u6bd4\u5bf9\u6587\u4ef6PF00067_seed.txt<\/p>\n

<\/a> <\/p>\n

\u63a5\u7740\u6211\u4eec\u9700\u8981\u5c06\u628a\u4e0b\u8f7d\u7684\u6587\u4ef6\u6269\u5c55\u540d.txt\u683c\u5f0f\u66f4\u6539\u6210.stockholm\u683c\u5f0f\uff0c\u5e76\u4e14\u653e\u5728hmmer\u7a0b\u5e8f\u7684\u6587\u4ef6\u5939\u5185\uff1b\u63a5\u7740\u5728\u7ec8\u7aef\u4e2d\uff0c\u4f7f\u7528HMMER\u7684hmmbuild\u547d\u4ee4\u5c06\u57df\u6a21\u578b\u6784\u5efa\u8d77\u6765\uff0c\u8be5\u547d\u4ee4\u5c06\u57df\u5e8f\u5217\u548c\u76f8\u5173\u4fe1\u606f\u4f5c\u4e3a\u8f93\u5165\uff0c\u751f\u6210\u4e00\u4e2aHMM\u6587\u4ef6\u3002\u5982\u56fe\u6240\u793a\uff0c\u6211\u4eec\u91c7\u7528\u4e86hmmbuild PF00067_seed.hmm PF00067_seed.stockholm\u6307\u4ee4\uff0c\u751f\u6210\u4e86\u4e00\u4e2ahmm\u6587\u4ef6<\/p>\n

<\/a> <\/p>\n

\u63a5\u4e0b\u6765\u6211\u4eec\u5c06\u4f7f\u7528hmmsearch\u6307\u4ee4\uff0c\u8f93\u5165hmmsearch PF00067_seed.hmm Icpep.fa > p450.out\uff0c\u8be5\u547d\u4ee4\u7684\u610f\u601d\u662f\u5c06\u76ee\u6807\u5e8f\u5217\u6587\u4ef6 “pep.fa” \u4e0e\u4fdd\u5b88\u57df\u6a21\u578b\u6587\u4ef6 “PF00067_seed.hmm” \u8fdb\u884c\u6bd4\u5bf9\uff0c\u5e76\u5c06\u6bd4\u5bf9\u7ed3\u679c\u4fdd\u5b58\u5230\u540d\u4e3a “p450.out” \u7684\u6587\u4ef6\u4e2d<\/p>\n

<\/a> <\/p>\n

\u8be5\u547d\u4ee4\u7684\u8f93\u51fa\u7ed3\u679c\u5c06\u5305\u542b\u6bd4\u5bf9\u7684\u76f8\u5173\u4fe1\u606f\uff0c\u5982\u5339\u914d\u4f4d\u7f6e\u3001\u5f97\u5206\u7b49\u3002\u53ef\u4ee5\u6253\u5f00 “p450.out” \u6587\u4ef6\u4e4b\u540e\uff0c\u6211\u4eec\u53ef\u4ee5\u67e5\u770b\u6bd4\u5bf9\u7ed3\u679c\u4ee5\u53ca\u86cb\u767d\u8d28\u5e8f\u5217\u662f\u5426\u5305\u542b\u4e0e\u4fdd\u5b88\u57df\u6a21\u578b\u76f8\u5339\u914d\u7684\u533a\u57df<\/p>\n

<\/a> <\/p>\n

\u6700\u540e\u76f8\u4fe1\u5927\u5bb6\u5df2\u7ecf\u4e86\u89e3\u5982\u4f55\u5229\u7528pfam\u6570\u636e\u5e93\u548cHMMER\u8fdb\u884c\u6bd4\u5bf9\u5566\uff01\u662f\u4e0d\u662f\u80fd\u5f88\u5207\u5b9e\u5730\u611f\u53d7\u5230HMMER\u975e\u5e38\u9ad8\u6548\u4fbf\u6377\u3002\u5bf9\u4e86\uff0c\u5982\u679c\u5927\u5bb6\u8fd8\u5bf9\u5176\u4ed6\u751f\u4fe1\u7684\u5de5\u5177\u611f\u5174\u8da3\u7684\u8bdd\uff0c\u6b22\u8fce\u5927\u5bb6\u70b9\u51fbhttp:\/\/www.biocloudservice.com\/home.html<\/a>\u8fdb\u884c\u5b66\u4e60\u54e6\uff01<\/p>\n","protected":false},"excerpt":{"rendered":"

\u5728\u65e5\u5e38\u7684\u751f\u4fe1\u5206\u6790\u4e2d\uff0c\u6211\u4eec\u5e38\u89c1\u7684\u5e8f\u5217\u6bd4\u5bf9\u5de5\u5177\u57fa\u672c\u90fd\u662fblast\u8fdb\u884c\u6bd4\u5bf9\u3002\u4f46\u662f\u4ece\u7814\u7a76\u57fa\u56e0\u529f\u80fd\u7684\u89d2\u5ea6\u6765\u8bb2\uff0cHMMER […]<\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"jetpack_post_was_ever_published":false,"_jetpack_newsletter_access":""},"categories":[1],"tags":[],"jetpack_featured_media_url":"","_links":{"self":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/25051"}],"collection":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=25051"}],"version-history":[{"count":1,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/25051\/revisions"}],"predecessor-version":[{"id":25057,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/25051\/revisions\/25057"}],"wp:attachment":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=25051"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=25051"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=25051"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}