{"id":1829,"date":"2007-10-06T09:42:08","date_gmt":"2007-10-06T00:42:08","guid":{"rendered":"http:\/\/yasu2.prosou.nu\/blog\/index.php\/2007\/10\/06\/sbml_forum_day_1\/"},"modified":"2007-10-06T09:42:08","modified_gmt":"2007-10-06T00:42:08","slug":"sbml_forum_day_1","status":"publish","type":"post","link":"https:\/\/yasu2.prosou.nu\/blog\/index.php\/2007\/10\/06\/1829\/","title":{"rendered":"SBML Forum: Day 1"},"content":{"rendered":"<p>[ Status of SBML: M. Hucka ]<br \/>\nSurvey by Klipp et al. [ Nat. Biotech. Apr 07]<br \/>\n&#8211; 80% \u306f\u6a19\u6e96\u5316\u304c\u5fc5\u8981\u3060\u3068\u8a8d\u8b58<br \/>\n&#8211; 60% \u306f SBML \u3092\u4f7f\u3063\u3066\u3044\u308b\u3068\u3044\u3063\u3066\u3044\u308b<br \/>\n\u4eca\u5f8c\u306e\u8ab2\u984c<br \/>\n&#8211; Validation: Test suite \u306e\u5145\u5b9f<br \/>\n&#8211; Semantics: MIRIAM + SBML recommendation (annotation approach), SBO (annotations regarding mathematical approach), etc.<br \/>\n&#8211; Governance: SBML \u306e\u958b\u767a\u4f53\u5236\u3092\u3069\u3046\u3059\u308b\u304b<br \/>\n[SABIO-RK database: M. Golebiewski @ EML]<br \/>\n\u30b7\u30df\u30e5\u30ec\u30fc\u30b7\u30e7\u30f3\u306b\u306f\u5b9f\u9a13\u306b\u3088\u308b kinetics data \u304c\u5fc5\u8981\u3067\u3001\u305d\u306e kinetic parameter \u306f\u74b0\u5883\u6761\u4ef6\u306b\u3088\u3063\u3066\u5927\u304d\u304f\u3053\u3068\u306a\u308a\u3001\u9175\u7d20\u306e\u6d3b\u6027\u3068\u304b\u306f\u751f\u7269\u7a2e\u305d\u306e\u4ed6\u306b\u3088\u3063\u3066\u7570\u306a\u308b\u3002\u305d\u3046\u3044\u3046\u306e\u3092\u7db2\u7f85\u7684\u306b\u6271\u3046\u30c7\u30fc\u30bf\u30d9\u30fc\u30b9\u3002<br \/>\n\u4eba\u624b\u306b\u3088\u308b\u4f5c\u696d\u304c\u5927\u5909\u305d\u3046\u3060\u3002<br \/>\n[ VCell: J. Schaff ]<br \/>\nPIP2 diffusion \u306e\u30b7\u30df\u30e5\u30ec\u30fc\u30b7\u30e7\u30f3\u7d50\u679c\u3068\u304b\u51fa\u3066\u305f\u3002How cool!<br \/>\n[ SBML3 orientation: M. Hucka ]<br \/>\nSBML \u3092\u300c\u30e2\u30b8\u30e5\u30fc\u30eb\u5316\u300d\u3059\u308b\u3002\u305f\u3068\u3048\u3070 XML \u306e namespace \u3092\u4f7f\u3063\u3066\u3002<br \/>\n\u3058\u3083\u3042\u3001SBML3 \u306e &#8220;Core&#8221; \u306f\u3069\u3046\u3059\u308c\u3070\u3044\u3044?<br \/>\nLevel 3 \u3067\u3067\u304d\u3066\u307b\u3057\u3044\u3053\u3068\u3044\u308d\u3044\u308d\u3002<br \/>\n[ Modifying SBML level 2 to be Level 3 Core: N. Le Nov\u00e9re ]<br \/>\n\u306a\u3093\u3068\u304b\u3057\u305f\u3044\u3053\u3068<br \/>\n&#8211; Inclusion<br \/>\n&#8211; Unit of kineticLaw<br \/>\n&#8211; Extension of MathML<br \/>\n&#8211; No mandatory orders on dependencies<br \/>\n&lt; listOfModules &gt; \u304c\u3067\u304d\u308b\u304b\u306a?<br \/>\n[ Model Composition \/ Aggregation: I. Moraru ]<br \/>\n\u968e\u5c64\u69cb\u9020\u306f atoms which are not really atomic \u3067\u5b9f\u73fe\u3055\u308c\u308b\u3002\u306a\u308b\u307b\u3069\u3002<br \/>\nHierarchal model extension<br \/>\n&#8211; Model Container: listOfSubmodels<br \/>\n&#8211; Linking elements = overloading: ListOfReplacements<br \/>\n[ Spatial modeling : J. Schaff ]<br \/>\nmesh \u3068\u306f\u9650\u3089\u306a\u3044\u305e\uff01<br \/>\n1\u6b21\u5143\u30842\u6b21\u5143 (\u819c\u3068\u304b) \u306e\u7cfb\u3082\u3042\u308b\u3002<br \/>\n\u5834\u3001\u3068\u304b\u3082\u8003\u3048\u306d\u3070\u306a\u3089\u306a\u3044\u3068\u304d\u304c\u3042\u308b\u3002<br \/>\n\u3046\u3072\u30fc\u3002<\/p>\n","protected":false},"excerpt":{"rendered":"<p>[ Status of SBML: M. Hucka ] Survey by Klipp et al. [ Nat. Biotech. Apr 07] &#8211; 80% \u306f\u6a19\u6e96\u5316\u304c\u5fc5\u8981\u3060\u3068\u8a8d\u8b58 &#8211; 60 &hellip; <a href=\"https:\/\/yasu2.prosou.nu\/blog\/index.php\/2007\/10\/06\/1829\/\" class=\"more-link\"><span class=\"screen-reader-text\">&#8220;SBML Forum: Day 1&#8221; \u306e<\/span>\u7d9a\u304d\u3092\u8aad\u3080<\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"activitypub_content_warning":"","activitypub_content_visibility":"","activitypub_max_image_attachments":4,"activitypub_interaction_policy_quote":"anyone","activitypub_status":"","footnotes":""},"categories":[10],"tags":[],"class_list":["post-1829","post","type-post","status-publish","format-standard","hentry","category-conference-logs"],"_links":{"self":[{"href":"https:\/\/yasu2.prosou.nu\/blog\/index.php\/wp-json\/wp\/v2\/posts\/1829","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/yasu2.prosou.nu\/blog\/index.php\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/yasu2.prosou.nu\/blog\/index.php\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/yasu2.prosou.nu\/blog\/index.php\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/yasu2.prosou.nu\/blog\/index.php\/wp-json\/wp\/v2\/comments?post=1829"}],"version-history":[{"count":0,"href":"https:\/\/yasu2.prosou.nu\/blog\/index.php\/wp-json\/wp\/v2\/posts\/1829\/revisions"}],"wp:attachment":[{"href":"https:\/\/yasu2.prosou.nu\/blog\/index.php\/wp-json\/wp\/v2\/media?parent=1829"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/yasu2.prosou.nu\/blog\/index.php\/wp-json\/wp\/v2\/categories?post=1829"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/yasu2.prosou.nu\/blog\/index.php\/wp-json\/wp\/v2\/tags?post=1829"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}