{"id":492,"date":"2018-03-24T20:29:40","date_gmt":"2018-03-24T11:29:40","guid":{"rendered":"http:\/\/www.ecobioinfo.com\/?p=492"},"modified":"2022-06-05T22:49:19","modified_gmt":"2022-06-05T13:49:19","slug":"ai%e8%aa%b2%e9%a1%8c1%ef%bc%9adna%e7%9b%b8%e5%90%8c%e6%80%a7%e6%a4%9c%e7%b4%a2%e3%81%a8ai2-16srdna%e5%a1%a9%e5%9f%ba%e9%85%8d%e5%88%97%e3%81%a7%e7%b4%b0%e8%8f%8c%e5%88%86%e9%a1%9e","status":"publish","type":"post","link":"http:\/\/www.ecobioinfo.com\/?p=492","title":{"rendered":"AI\u8ab2\u984c1\uff1aDNA\u76f8\u540c\u6027\u691c\u7d22\u3068AI(2) 16SrDNA\u5869\u57fa\u914d\u5217\u3067\u7d30\u83cc\u5206\u985e"},"content":{"rendered":"

 <\/p>\n

SSearch, blast \u3084 ClastalW \u306e\u3088\u3046\u306a\u30d7\u30ed\u30b0\u30e9\u30e0\u3092\u5229\u7528\u3057\u3066\u300116SrDNA\u5869\u57fa\u914d\u5217\u3067\u7d30\u83cc\u306e\u5206\u985e\u3092\u76ee\u7684\u3068\u3057\u3066\u76f8\u540c\u6027\u691c\u7d22\u3068\u7cfb\u7d71\u6a39\u4f5c\u6210\u3092\u884c\u3046\u3053\u3068\u306f\u3001\u7d30\u83cc\u7814\u7a76\u3067\u306f\u3088\u304f\u304a\u3053\u306a\u308f\u308c\u3066\u3044\u307e\u3059\u3002
\n\u5f93\u6765\u306e\u65b9\u6cd5\u3067\u306f\u4ee5\u4e0b\u306e\u624b\u9806\u304c\u4e00\u822c\u7684\u3060\u3068\u601d\u3044\u307e\u3059\u3002
\n(1)\u30b5\u30f3\u30d7\u30eb\u306e 16SrDNA \u5869\u57fa\u914d\u5217\u3092 DNA\u30b7\u30fc\u30b1\u30f3\u30b5\u30fc\u3067\u8aad\u307f\u53d6\u308b\u3002
\n(2)16SrDNA \u5869\u57fa\u914d\u5217\u3092DNA\u30c7\u30fc\u30bf\u30d9\u30fc\u30b9( DDBJ \u306a\u3069)\u3068\u30d7\u30ed\u30b0\u30e9\u30e0( SSearch, blast \u306a\u3069)\u3092\u5229\u7528\u3057\u3066\u76f8\u540c\u6027\u691c\u7d22\u3092\u884c\u3046\u3002
\n(3)\u907a\u4f1d\u5b50\u7cfb\u7d71\u6a39\u3092\u66f8\u3044\u3066\u3069\u306e\u30b0\u30eb\u30fc\u30d7\u306b\u5c5e\u3059\u308b\u304b\u691c\u8a0e\u3059\u308b\u3002<\/p>\n

\u30c7\u30a3\u30fc\u30d7\u30e9\u30fc\u30cb\u30f3\u30b0\uff08\u6df1\u5c64\u5b66\u7fd2\uff09\u3067\u306f\u4ee5\u4e0b\u306e\u3088\u3046\u306a\u4f5c\u696d\u3068\u306a\u308a\u307e\u3059\u3002
\n(1)\u65e2\u5b58\u306e 16SrDNA \u5869\u57fa\u914d\u5217\u3068\u30d0\u30af\u30c6\u30ea\u30a2\u306e\u7a2e\u985e\u306e\u30d1\u30bf\u30fc\u30f3\u3092\u5927\u91cf\u306b\u4e0e\u3048\u5b66\u7fd2\u3055\u305b\u308b\u3002
\n(2)\u30b5\u30f3\u30d7\u30eb\u306e 16SrDNA \u5869\u57fa\u914d\u5217\u3092 DNA\u30b7\u30fc\u30b1\u30f3\u30b5\u30fc\u3067\u8aad\u307f\u53d6\u308b\u3002
\n(3)\u5b66\u7fd2\u6e08\u307f\u30e2\u30c7\u30eb\u3092\u5229\u7528\u3057\u3066\u3001\u30b5\u30f3\u30d7\u30eb\u306e 16SrDNA \u5869\u57fa\u914d\u5217\u304b\u3089\u30d0\u30af\u30c6\u30ea\u30a2\u306e\u7a2e\u3092\u6c42\u3081\u308b\u3002<\/p>\n

\u30c7\u30a3\u30fc\u30d7\u30e9\u30fc\u30cb\u30f3\u30b0\u306e\u4e00\u3064\u306e\u5229\u70b9\u306f\u3001\u57fa\u672c\u7684\u306b\u306f\u5f93\u6765\u306e\u30a2\u30eb\u30b4\u30ea\u30ba\u30e0\u3067\u306f\u96e3\u3057\u3044\u5224\u65ad\u3092\u30b3\u30f3\u30d4\u30e5\u30fc\u30bf\u3067\u884c\u3046\u3053\u3068\u3067\u3059\u304c\u3001 \u3053\u306e\u5834\u5408\u306f\u3001\u4e0a\u624b\u304f\u3044\u3051\u3070\u5b66\u7fd2\u6e08\u307f\u30e2\u30c7\u30eb\u3092\u5229\u7528\u3059\u308b\u3053\u3068\u306b\u3088\u3063\u3066\u3001\u30b9\u30fc\u30d1\u30fc\u30b3\u30f3\u30d4\u30e5\u30fc\u30bf\u3067\u5927\u91cf\u306eDNA\u30c7\u30fc\u30bf\u3092\u691c\u7d22\u3059\u308b\u624b\u9593\u304c\u7701\u3051\u3001\u30d1\u30bd\u30b3\u30f3\/\u30b9\u30de\u30fc\u30c8\u30d5\u30a9\u30f3\/\u7d44\u8fbc\u6a5f\u5668\u7a0b\u5ea6\u306e\u30b9\u30da\u30c3\u30af\u3067\u3082\u9ad8\u901f\u306a\u7c21\u6613\u691c\u67fb\u304c\u3067\u304d\u308b\u53ef\u80fd\u6027\u304c\u8003\u3048\u3089\u308c\u307e\u3059\u3002
\n\u5b66\u7fd2\u306b\u306f\u6642\u9593\u304c\u304b\u304b\u308a\u307e\u3059\u304c\u3001\u4e00\u5ea6\u5b66\u7fd2\u3057\u3066\u3057\u307e\u3048\u3070\u4ee5\u964d\u306f\u5b66\u7fd2\u6e08\u307f\u30e2\u30c7\u30eb\u3092\u5229\u7528\u3059\u308b\u3053\u3068\u306b\u3088\u3063\u3066\u8efd\u91cf\u5316\u3068\u9ad8\u901f\u5316\u304c\u3067\u304d\u308b\u306e\u3067\u306f\u306a\u3044\u304b\u3068\u8003\u3048\u3089\u308c\u307e\u3059\u3002<\/p>\n

\u30c7\u30a3\u30fc\u30d7\u30e9\u30fc\u30cb\u30f3\u30b0\u3060\u3051\u3067\u3069\u306e\u7a0b\u5ea6\u306e\u5206\u985e\u304c\u3067\u304d\u308b\u304c\u8a66\u3057\u3066\u307f\u3088\u3046\u3068\u601d\u3044\u307e\u3059\u3002<\/p>\n

\u3010\u8ab2\u984c\uff11\uff0d\uff11 16SrDNA\u5869\u57fa\u914d\u5217\u3067\u7d30\u83cc\u5206\u985e\u3011<\/p>\n

\u307e\u305a\u306f\u3001\u8a66\u3057\u306b\u5c5e\u30ec\u30d9\u30eb\u3067\u5206\u985e\u3057\u3066\u307f\u3088\u3046\u3068\u601d\u3044\u307e\u3059\u3002<\/p>\n

(1)DDBJ\u304b\u3089\u7d30\u83cc\u306e16SrDNA\u3092\u30c0\u30a6\u30f3\u30ed\u30fc\u30c9\u3002<\/p>\n

https:\/\/www.ddbj.nig.ac.jp\/download-e.html
\n16S rRNA (Prokaryotes) in FASTA format \u3092\u30c0\u30a6\u30f3\u30ed\u30fc\u30c9<\/p>\n

(2)\u4eca\u56de\u306e\u5bfe\u8c61\u3068\u306a\u308b\u5c5e\u306e\u30c7\u30fc\u30bf\u3092\u62bd\u51fa\u3002<\/p>\n

\u30c7\u30fc\u30bf\u304c\u5c11\u306a\u3044\u3068\u5b66\u7fd2\u3067\u304d\u306a\u3044\u306e\u3067\u767b\u9332\u4ef6\u6570\u304c\u4e00\u5b9a\u91cf\u4ee5\u4e0a\u306e\u5c5e\u3092\u62bd\u51fa\u3057\u307e\u3059\u3002
\n\u4eca\u56de\u306f\u3001\u767b\u9332 \u5404\u5c5e\u3067600\u4ef6\u4ee5\u4e0a\u3001123\u7a2e\u985e\u306e\u5c5e\u3092\u5206\u985e\u3057\u307e\u3059\u3002<\/p>\n

\u62bd\u51fa\u306b\u4f7f\u3063\u305f\u30d6\u30ed\u30b0\u30e9\u30e0\uff08 dnaread.py <\/a>\uff09<\/p>\n

\u62bd\u51fa\u7d50\u679c\u306e\u30d5\u30a1\u30a4\u30eb\uff08 target16S.fasta<\/a> , genera.txt<\/a>\uff09<\/p>\n

(3)\u554f\u984c\u3068\u6b63\u89e3\uff08DNA\u3068\u5c5e\u540d)\u306e\u30d1\u30bf\u30fc\u30f3\u3092\u4f5c\u6210\u3001\u30c7\u30a3\u30fc\u30d7\u30e9\u30fc\u30cb\u30f3\u30b0(\u4eca\u56de\u306f TensorFlow \u3092\u4f7f\u3046)\u3067\u4f7f\u3048\u308b\u30c7\u30fc\u30bf\u5f62\u5f0f\u306b\u5909\u63db\u3059\u308b\u3002<\/p>\n

\u307e\u305a\u306f\u3001\u56fa\u5b9a\u9577\u3067\u5168\u7d50\u5408\u578b\u3067\u8a66\u3057\u3066\u307f\u307e\u3059\u3002
\n\u767b\u9332\u30c7\u30fc\u30bf\u306b\u3088\u3063\u3066\u306f\u5148\u7aef\u3084\u672b\u7aef\u306eDNA\u306f\u8aad\u307f\u53d6\u308c\u3066\u3044\u306a\u3044\u5834\u5408\u304c\u3042\u308b\u306e\u3067\u3001\u4e2d\u592e\u90e8\u5206 1024\u5869\u57fa\u3092\u4f7f\u3046\u3053\u3068\u306b\u3057\u307e\u3057\u305f\u3002<\/p>\n

\u5909\u63db\u3059\u308b\u30d7\u30ed\u30b0\u30e9\u30e0\uff08 converttfdata.py<\/a> \uff09<\/p>\n

\u5909\u63db\u7d50\u679c\u306e\u30d5\u30a1\u30a4\u30eb\uff08 tf16S.dna<\/a> , tf16S.ans <\/a>\uff09<\/p>\n

(4)\u4f5c\u6210\u3057\u305f\u30c7\u30fc\u30bf\u3067\u5b66\u7fd2\u3092\u884c\u3046\u3002
\n\u4eca\u56de\u306f\u3001\u5168\u7d50\u5408\u578b\uff11\u5c64\u3001\u30ce\u30fc\u30c9\u6570\u306f\u30011024\u5869\u57fa\u00d716(4\u5869\u57fa\u00d74\u5869\u57fa)=16834\u306b\u3057\u3066\u307f\u307e\u3057\u305f\u3002
\n\uff08\u4eca\u5f8c\u306f\u3001\u4ed6\u306e\u65b9\u6cd5\u3082\u8a66\u3057\u3066\u307f\u307e\u3059\u3002\uff09<\/p>\n

\u5b66\u7fd2\u30d7\u30ed\u30b0\u30e9\u30e0\uff08 dnadnn.py<\/a> \uff09<\/p>\n

\u5b66\u7fd2\u6642\u9593\u306f\uff12\u6642\u9593\u534a\u7a0b\u5ea6\u3067\u3057\u305f\u3002<\/p>\n

\u5b66\u7fd2\u7d50\u679c\uff08\u5b66\u7fd2\u6e08\u307f\u30e2\u30c7\u30eb\uff09
\n\uff08model_full.ckpt.data-00000-of-00001 <\/a>, model_full.ckpt.index<\/a> ,\u00a0 model_full.ckpt.meta\u00a0<\/a>\uff09<\/p>\n

(5)\u5b66\u7fd2\u6e08\u307f\u30e2\u30c7\u30eb\u306e\u691c\u8a3c\u3092\u884c\u3046\u3002
\n\u65e2\u5b58\u306e\u30c7\u30fc\u30bf\u3067\u30c6\u30b9\u30c8\u3057\u3066\u5f97\u3089\u308c\u305f\u7d50\u679c\u3067\u3059\u3002<\/p>\n

\u30c6\u30b9\u30c8Python\u30d7\u30ed\u30b0\u30e9\u30e0\uff08 dnadnntest.py<\/a> \uff09<\/p>\n

[\u00a0 0\u00a0\u00a0 1\u00a0\u00a0 2 … 114\u00a0 68\u00a0 31]
\n[\u00a0 0\u00a0\u00a0 1\u00a0\u00a0 2 … 114\u00a0 68\u00a0 31]
\n\u7cbe\u5ea6
\n0.9383<\/p>\n

\u307e\u3060\u6b63\u7b54\u7387\uff19\u5272\u7a0b\u5ea6\u3067\u3059\u304c\u3001\u3042\u308b\u7a0b\u5ea6\u306e\u5224\u65ad\u306f\u3067\u304d\u3066\u3044\u308b\u3068\u601d\u3044\u307e\u3059\u3002
\n\u30ce\u30fc\u30c9\u3092\u5897\u3084\u3059\u3053\u3068\u3084\u5c64\u3092\u6df1\u304f\u3059\u308b\u306a\u3069\u3001\u3042\u308b\u3044\u306f\u30a4\u30f3\u30d7\u30c3\u30c8\u30c7\u30fc\u30bf\u306e\u7a2e\u985e\u3068\u91cf\u3084\u5f62\u5f0f\u3092\u5de5\u592b\u3059\u308b\u306a\u3069\u3067\u6539\u5584\u3067\u304d\u308b\u304b\u3082\u3057\u308c\u307e\u305b\u3093\u3002
\n\u7573\u8fbc\u30cb\u30e5\u30fc\u30e9\u30eb\u30cd\u30c3\u30c8\u30ef\u30fc\u30af\u3084\u518d\u5e30\u578b\u30cb\u30e5\u30fc\u30e9\u30eb\u30cd\u30c3\u30c8\u30ef\u30fc\u30af\u3067\u8a66\u3057\u3066\u307f\u308b\u3068\u826f\u3044\u7d50\u679c\u304c\u5f97\u3089\u308c\u308b\u304b\u3082\u3057\u308c\u307e\u305b\u3093\u3002<\/p>\n

\u307e\u305f\u3001\u5b66\u7fd2\u6642\u9593\u304c\u9577\u304f\u306a\u3063\u3066\u304d\u305f\u306e\u3067\u3001\u305d\u308d\u305d\u308d\u30cf\u30fc\u30c9\u30b9\u30da\u30c3\u30af\u3092\u6539\u5584\u3057\u3066 GPU \u306e\u5c0e\u5165\u691c\u8a0e\u3082\u5fc5\u8981\u304b\u3068\u601d\u308f\u308c\u307e\u3059\u3002<\/p>\n

 <\/p>\n

(S.Onda 2018\/3\/24)<\/p>\n

 <\/p>\n

 <\/p>\n","protected":false},"excerpt":{"rendered":"  SSearch, blast \u3084 ClastalW \u306e\u3088\u3046\u306a\u30d7\u30ed\u30b0\u30e9\u30e0\u3092\u5229\u7528\u3057\u3066\u300116SrDNA\u5869\u57fa\u914d\u5217\u3067\u7d30\u83cc\u306e\u5206\u985e\u3092\u76ee\u7684\u3068\u3057\u3066\u76f8\u540c\u6027\u691c\u7d22\u3068\u7cfb\u7d71\u6a39\u4f5c\u6210\u3092\u884c\u3046\u3053\u3068\u306f\u3001\u7d30\u83cc\u7814\u7a76\u3067\u306f\u3088\u304f\u304a\u3053\u306a\u308f\u308c\u3066\u3044\u307e\u3059\u3002 \u5f93\u6765 …","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[7],"tags":[],"class_list":["post-492","post","type-post","status-publish","format-standard","hentry","category-ai_ecobio"],"_links":{"self":[{"href":"http:\/\/www.ecobioinfo.com\/index.php?rest_route=\/wp\/v2\/posts\/492","targetHints":{"allow":["GET"]}}],"collection":[{"href":"http:\/\/www.ecobioinfo.com\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"http:\/\/www.ecobioinfo.com\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"http:\/\/www.ecobioinfo.com\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"http:\/\/www.ecobioinfo.com\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=492"}],"version-history":[{"count":18,"href":"http:\/\/www.ecobioinfo.com\/index.php?rest_route=\/wp\/v2\/posts\/492\/revisions"}],"predecessor-version":[{"id":1487,"href":"http:\/\/www.ecobioinfo.com\/index.php?rest_route=\/wp\/v2\/posts\/492\/revisions\/1487"}],"wp:attachment":[{"href":"http:\/\/www.ecobioinfo.com\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=492"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.ecobioinfo.com\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=492"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.ecobioinfo.com\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=492"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}