{"id":117,"date":"2012-08-22T21:31:03","date_gmt":"2012-08-22T13:31:03","guid":{"rendered":"http:\/\/www.hzaumycology.com\/chenlianfu_blog\/?p=117"},"modified":"2012-08-22T22:09:08","modified_gmt":"2012-08-22T14:09:08","slug":"nucleotide-blast%e4%b8%admegablastdiscontiguous-megablastblastn%e7%9a%84%e5%8c%ba%e5%88%ab%e4%b8%8e%e9%80%89%e6%8b%a9","status":"publish","type":"post","link":"http:\/\/www.chenlianfu.com\/?p=117","title":{"rendered":"MegaBlast\/Discontiguous MegaBlast\/BlastN, Blastp\/PSI-Blast\/PHI-BLAST\u7684\u533a\u522b\u4e0e\u9009\u62e9"},"content":{"rendered":"<p>\u4eceblastn\u9875\u9762\u4e0a\u7684\u7b80\u5355\u5e2e\u52a9\u53ef\u4ee5\u770b\u5230Highly similar sequences (megablast)\u591a\u7528\u4e8e\u6bd4\u8f83\u76f8\u4f3c\u6027\u6bd4\u8f83\u9ad8\uff08\u76f8\u4f3c\u6027\u572895%\u4ee5\u4e0a\uff09\u7684\u5e8f\u5217\uff0c\u901f\u5ea6\u5feb\uff1bMore dissimilar sequences (discontiguous megablast)\u7528\u4e8e\u76f8\u4f3c\u6027\u7a0d\u4f4e\u4e8emegablast\u7684\u6bd4\u5bf9\uff0c\u4f46\u662f\u7075\u654f\u5ea6\u548c\u7cbe\u786e\u5ea6\u66f4\u9ad8\uff0c\u591a\u7528\u4e8e\u4e0d\u540c\u7269\u79cd\u95f4\u7684\u540c\u6e90\u6bd4\u5bf9\uff1b\u800cSomewhat similar sequences (blastn)\u7528\u4e8e\u6bd4\u5bf9\u76f8\u4f3c\u6027\u8f83\u5dee\u7684\u5e8f\u5217\uff0c\u53ef\u4ee5\u6bd4\u5bf9\u6700\u77ed7\u4e2a\u78b1\u57fa\u7684\u957f\u5ea6\uff0c\u6240\u4ee5\u6bd4\u5bf9\u7cbe\u786e\u5ea6\u6700\u9ad8\uff0c\u6bd4\u5bf9\u7ed3\u679c\u6700\u591a\uff0c\u901f\u5ea6\u6700\u6162\u3002<\/p>\n<p>\u6240\u4ee5\uff0c\u5728\u9009\u62e9\u7684\u65f6\u5019\u6839\u636e\u4f60\u63d0\u4ea4\u7684\u5e8f\u5217\u548c\u641c\u7d22\u7684\u76ee\u7684\u8fdb\u884c\u9009\u62e9\uff0c\u5982\u679c\u662f\u60f3\u770b\u8fd9\u6bb5\u5e8f\u5217\u5728\u6570\u636e\u5e93\u5f53\u4e2d\u662f\u5426\u6709\u6536\u5f55\uff0c\u53ef\u4ee5\u7528megablast\uff0c\u5982\u679c\u60f3\u7528\u5176\u4ed6\u7269 \u79cd\u7684\u57fa\u56e0\u6ce8\u91ca\u4fe1\u606f\u6765\u6ce8\u91ca\u4e00\u4e2a\u672a\u6ce8\u91ca\u7269\u79cd\u7684\u5e8f\u5217\uff0c\u53ef\u4ee5\u9009\u62e9discontiguous megablast\uff0c\u5982\u679c\u60f3\u5f97\u5230\u66f4\u591a\u66f4\u5168\u9762\u7684\u7ed3\u679c\uff0c\u53ef\u4ee5\u9009\u62e9blastn\u3002<\/p>\n<p>\u8bf4\u5b8cblastn\uff0c\u63a5\u7740\u8bf4blastp~blsatp\u4e2d\u4e5f\u6709\u4e09\u4e2a\u4e0d\u540c\u7684\u7b97\u6cd5\u53ef\u4ee5\u9009\u62e9\uff0c\u5982\u4e0b\uff1a<\/p>\n<pre>blastp (protein-protein BLAST)\u5c31\u662f\u7b80\u5355\u5730\u8fdb\u884c\u86cb\u767d\u4e0e\u86cb\u767d\u7684\u6bd4\u5bf9\uff0c\u5bfb\u627e\u86cb\u767d\u8d28\u76f8\r\n\u4f3c\u5e8f\u5217\uff1b\r\n\r\nPSI-BLAST (Position-Specific Iterated BLAST)\u53eb\u505a\u4f4d\u70b9\u7279\u5f02\u6027\u8fed\u4ee3\u6bd4\u5bf9\uff0c\u5b83\r\n\u5728\u86cb\u767d\u8d28\u6570\u636e\u5e93\u4e2d\u5faa\u73af\u641c\u7d22\u67e5\u8be2\u86cb\u767d\u8d28\uff0c\u6240\u6709\u524d\u4e00\u6b21\u88abpsi-blast\u53d1\u73b0\u7684\u7edf\u8ba1\u663e\u8457\u86cb\u767d\u8d28\u5e8f\r\n\u5217\u5c06\u6574\u5408\u6210\u65b0\u8bb0\u5206\u77e9 \u9635\uff0c\u901a\u8fc7\u591a\u6b21\u8fed\u4ee3\u6bd4\u5bf9\uff0c\u76f4\u5230\u4e0d\u518d\u53d1\u73b0\u7edf\u8ba1\u663e\u8457\u7684\u65b0\u86cb\u767d\u8d28\uff1b\r\n\r\nPHI-BLAST (Pattern Hit Initiated BLAST)\u53ef\u4ee5\u5728\u641c\u7d22\u7684\u65f6\u5019\u9650\u5b9a\u86cb\u767d\u8d28\u7684\u6a21\u5f0f\r\n\uff08pattern\uff09\uff0c\u53ea\u7ed9\u51fa\u5305\u542b\u6b64\u6a21\u5f0f\u7684\u6bd4\u5bf9\u7ed3\u679c\u3002<\/pre>\n<p>Blastp\/PSI-Blast\/PHI-BLAST\u90fd\u662f\u86cb\u767d\u5e8f\u5217\u4e0e\u86cb\u767d\u5e8f\u5217\u4e4b\u95f4\u7684Blast\u6bd4\u5bf9<\/p>\n<p>1. Blastp: \u6807\u51c6\u7684\u86cb\u767d\u5e8f\u5217\u4e0e\u86cb\u767d\u5e8f\u5217\u4e4b\u95f4\u7684\u6bd4\u5bf9 Standard protein BLAST is designed for protein searches. Blastp\u7528\u4e8e\u786e\u5b9a\u67e5\u8be2\u7684\u6c28\u57fa\u9178\u5e8f\u5217\u5728\u86cb\u767d\u6570\u636e\u5e93\u4e2d\u627e\u5230\u76f8\u4f3c\u7684\u5e8f\u5217\u3002\u8ddf\u5176\u5b83\u7684Blast\u7a0b\u5e8f\u4e00\u6837\uff0c\u76ee\u7684\u662f\u8981\u627e\u5230\u76f8\u4f3c\u7684\u533a\u57df\u3002<\/p>\n<p>2. PSI-BLAST : \u654f\u611f\u5ea6\u66f4\u9ad8\u7684\u86cb\u767d\u5e8f\u5217\u4e0e\u86cb\u767d\u5e8f\u5217\u4e4b\u95f4\u7684\u6bd4\u5bf9 PSI-BLAST is designed for more sensitive protein-protein similarity searches. Position-Specific Iterated (PSI)-BLAST\uff0c\u662f\u4e00\u79cd\u66f4\u52a0\u9ad8\u7075\u654f\u7684Blastp\u7a0b\u5e8f\uff0c\u5bf9\u4e8e\u53d1\u73b0\u8fdc\u4eb2\u7269\u79cd\u7684\u76f8\u4f3c\u86cb\u767d\u6216\u67d0\u4e2a\u86cb\u767d\u5bb6\u65cf\u7684\u65b0\u6210\u5458\u975e\u5e38\u6709\u6548\u3002\u5f53\u4f60\u4f7f\u7528\u6807\u51c6\u7684Blastp \u6bd4\u5bf9\u5931\u8d25\u65f6\uff0c\u6216\u6bd4\u5bf9\u7684\u7ed3\u679c\u4ec5\u4ec5\u662f\u4e00\u4e9b\u5047\u57fa\u56e0\u6216\u63a8\u6d4b\u7684\u57fa\u56e0\u5e8f\u5217\u65f6\uff08&#8221;hypothetical protein&#8221; or &#8220;similar to&#8230;&#8221;\uff09\uff0c\u4f60\u53ef\u4ee5\u9009\u62e9PSI-BLAST\u91cd\u65b0\u8bd5\u8bd5\u3002<\/p>\n<p>3. PHI-BLAST : \u6a21\u5f0f\u53d1\u73b0\u8fed\u4ee3BLAST PHI-BLAST can do a restricted protein pattern search. PHI-BLAST, \u6a21\u5f0f\u53d1\u73b0\u8fed\u4ee3BLAST, \u7528\u86cb\u767d\u67e5\u8be2\u6765\u641c\u7d22\u86cb\u767d\u6570\u636e\u5e93\u7684\u4e00\u4e2a\u7a0b\u5e8f\u3002\u4ec5\u4ec5\u627e\u51fa\u90a3\u4e9b\u67e5\u8be2\u5e8f\u5217\u4e2d\u542b\u6709\u7684\u7279\u6b8a\u6a21\u5f0f\u7684\u5bf9\u9f50\u3002<\/p>\n<p>PHI\u7684\u8bed\u6cd5\u8be6\u7ec6\u4ecb\u7ecd\u770b\u8fd9\u91cc\uff1ahttp:\/\/www.ncbi.nlm.nih.gov\/blast\/html\/PHIsyntax.html<\/p>\n","protected":false},"excerpt":{"rendered":"<p>\u4eceblastn\u9875\u9762\u4e0a\u7684\u7b80\u5355\u5e2e\u52a9\u53ef\u4ee5\u770b\u5230Highly similar sequen &hellip; <a href=\"http:\/\/www.chenlianfu.com\/?p=117\">\u7ee7\u7eed\u9605\u8bfb <span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":[],"categories":[3],"tags":[8],"_links":{"self":[{"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/posts\/117"}],"collection":[{"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=117"}],"version-history":[{"count":4,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/posts\/117\/revisions"}],"predecessor-version":[{"id":131,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/posts\/117\/revisions\/131"}],"wp:attachment":[{"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=117"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=117"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=117"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}