{"id":2633,"date":"2011-05-13T10:00:00","date_gmt":"2011-05-13T10:00:00","guid":{"rendered":"https:\/\/blogs.msdn.microsoft.com\/msr_er\/2011\/05\/13\/bioinformatics-front-and-center-at-mbf-workshop\/"},"modified":"2016-07-20T07:33:54","modified_gmt":"2016-07-20T14:33:54","slug":"bioinformatics-front-and-center-at-mbf-workshop","status":"publish","type":"post","link":"https:\/\/www.microsoft.com\/en-us\/research\/blog\/bioinformatics-front-and-center-at-mbf-workshop\/","title":{"rendered":"Bioinformatics Front and Center at MBF Workshop"},"content":{"rendered":"<p><span style=\"font-family: verdana,geneva; font-size: medium;\"><a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"https:\/\/msdnshared.blob.core.windows.net\/media\/MSDNBlogsFS\/prod.evol.blogs.msdn.com\/CommunityServer.Blogs.Components.WeblogFiles\/00\/00\/01\/32\/81\/8546.MBF.png\" original-url=\"http:\/\/blogs.msdn.com\/cfs-file.ashx\/__key\/communityserver-blogs-components-weblogfiles\/00-00-01-32-81\/8546.MBF.png\"><span class=\"sr-only\"> (opens in new tab)<\/span><\/a><a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"https:\/\/msdnshared.blob.core.windows.net\/media\/MSDNBlogsFS\/prod.evol.blogs.msdn.com\/CommunityServer.Blogs.Components.WeblogFiles\/00\/00\/01\/32\/81\/3716.MBF.png\" original-url=\"http:\/\/blogs.msdn.com\/cfs-file.ashx\/__key\/communityserver-blogs-components-weblogfiles\/00-00-01-32-81\/3716.MBF.png\"><span class=\"sr-only\"> (opens in new tab)<\/span><\/a><a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"https:\/\/msdnshared.blob.core.windows.net\/media\/MSDNBlogsFS\/prod.evol.blogs.msdn.com\/CommunityServer.Blogs.Components.WeblogFiles\/00\/00\/01\/32\/81\/0361.MBF_80x138.png\" original-url=\"http:\/\/blogs.msdn.com\/cfs-file.ashx\/__key\/communityserver-blogs-components-weblogfiles\/00-00-01-32-81\/0361.MBF_5F00_80x138.png\"><img decoding=\"async\" src=\"https:\/\/msdnshared.blob.core.windows.net\/media\/MSDNBlogsFS\/prod.evol.blogs.msdn.com\/CommunityServer.Blogs.Components.WeblogFiles\/00\/00\/01\/32\/81\/0361.MBF_80x138.png\" original-url=\"http:\/\/blogs.msdn.com\/resized-image.ashx\/__size\/80x138\/__key\/communityserver-blogs-components-weblogfiles\/00-00-01-32-81\/0361.MBF_5F00_80x138.png\" border=\"0\" style=\"float: left;\" \/><span class=\"sr-only\"> (opens in new tab)<\/span><\/a>On April 19 and 20, the <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-US\/projects\/bio\/default.aspx\"><span style=\"color: #0000ff;\">Microsoft Biology Initiative<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a> welcomed a small, focused group to the <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-us\/events\/mbf2011-chapelhill\/\"><span style=\"color: #0000ff;\">Microsoft Biology Foundation Workshop 2011<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a>, held at the <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/www.renci.org\/\"><span style=\"color: #0000ff;\">Renaissance Computing Institute (RENCI)<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a> in Chapel Hill, North Carolina. The workshop was a clinic in the use of the <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-us\/projects\/bio\/mbf.aspx\"><span style=\"color: #0000ff;\">Microsoft Biology Foundation (MBF)<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a>, an open-source Microsoft .NET library and application-programming interface for bioinformatics research.<\/span><\/p>\n<p><span style=\"font-family: verdana,geneva; font-size: medium;\">Attendees included representatives from <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/www.basf.com\/group\/corporate\/en\/products-and-industries\/biotechnology\/plant-biotechnology\/index\"><span style=\"color: #0000ff;\">BASF Plant Science<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a>, <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/www.sra.com\/about-us\/profile.php\"><span style=\"color: #0000ff;\">SRA International<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a>, and the <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/www.unc.edu\/index.htm\"><span style=\"color: #0000ff;\">University of North Carolina<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a>. The two-day workshop covered the basics of MBF, as well as more advanced topics, such as scalability and the new features in the <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-us\/downloads\/5ced2711-313a-4dcb-84aa-adb87c9ea0a9\/\"><span style=\"color: #0000ff;\">beta 1 release of MBF version 2.0<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a>. (The full release of version 2.0 is planned for this summer.)<\/span><\/p>\n<p><span style=\"font-family: verdana,geneva; font-size: medium;\">Mark Smith, our workshop instructor, did a great job of presenting the material and engaging the audience, which included participants with a variety of programming backgrounds. Attendees loved the code-along sessions, as well as the great introduction to Microsoft .NET Framework programming! Not surprisingly, there was considerable interest in the launch of our <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-us\/projects\/bio\/mbfcontest.aspx\"><span style=\"color: #0000ff;\">MBF coding contest<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a>, where one lucky winner will receive an Xbox 360 with Kinect. Workshop samples, including slides and hands-on labs, are available on the <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-us\/projects\/bio\/training.aspx\"><span style=\"color: #0000ff;\">Microsoft Biology Training<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a> page.<\/span><\/p>\n<p><span style=\"font-family: verdana,geneva; font-size: medium;\"><b>Feedback<\/b><\/span><\/p>\n<p><span style=\"font-family: verdana,geneva; font-size: medium;\">Participant input will help us make future MBF workshops more valuable. Here&rsquo;s a sampling of participants&rsquo; feedback: <\/span><\/p>\n<p><span style=\"font-family: verdana,geneva; font-size: medium;\">What did you enjoy most about the workshop?<\/span><\/p>\n<ul>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\">The labs, which provided simple yet powerful examples of the types of programs that can be built<\/span><\/li>\n<\/ul>\n<p><span style=\"font-family: verdana,geneva; font-size: medium;\">&nbsp;What would you suggest we change\/improve?<\/span><\/p>\n<ul>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\">Add some performance metrics demonstrating why particular structures of classes make sense in different contexts<\/span><\/li>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\">Provide more time to do the labs<\/span><\/li>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\">Include more bioinformatics tools, such as <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/en.wikipedia.org\/wiki\/FASTA\">FASTA<span class=\"sr-only\"> (opens in new tab)<\/span><\/a> search and <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/en.wikipedia.org\/wiki\/PHYLIP\">PHYLIP<span class=\"sr-only\"> (opens in new tab)<\/span><\/a><\/span><\/li>\n<\/ul>\n<p><span style=\"font-family: verdana,geneva; font-size: medium;\">&nbsp;How are you using MBF or planning to use MBF?<\/span><\/p>\n<ul>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\">To display (parsed) genomic data, annotate, pipe into sequence analysis programs<\/span><\/li>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\">Planning to extend it to handle PDB files<\/span><\/li>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\">For sequencing analysis<\/span><\/li>\n<\/ul>\n<p><span style=\"font-family: verdana,geneva; font-size: medium;\"><b>Future Workshops<\/b><\/span><\/p>\n<p><span style=\"font-family: verdana,geneva; font-size: medium;\">We will host a two-day <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-us\/events\/mbf2011-cartagena\/default.aspx\"><span style=\"color: #0000ff;\">MBF Workshop in Cartagena, Colombia<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a>, May 16 and 17, 2011. We are also planning a workshop in Brisbane, Australia, July 7 and 8, during the 2011 <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/bioinformatics.org.au\/ws\"><span style=\"color: #0000ff;\">Winter School in Mathematical and Computational Biology<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a>; I will post details once they&rsquo;ve been finalized. Additional workshops are in the planning stage; we will announce the dates and sites when they are finalized. <\/span><\/p>\n<p><span style=\"font-family: verdana,geneva; font-size: medium;\"><span style=\"font-family: Arial;\">I<a><\/a><\/span>n the meantime, we encourage you to get involved in the MBF project. You can join the project and download source code from the <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/mbf.codeplex.com\/releases\/view\/64936\"><span style=\"color: #0000ff;\">Microsoft Biology Foundation CodePlex<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a> site. If you discover a problem, please report it under the <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/mbf.codeplex.com\/workitem\/list\/basic\"><span style=\"color: #0000ff;\">Issue Tracker<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a> tab; if you have a question or suggestion, use the <a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/mbf.codeplex.com\/discussions\"><span style=\"color: #0000ff;\">Discussions<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a> tab.<\/span><\/p>\n<p><span style=\"font-family: verdana,geneva; font-size: medium;\"><i>&nbsp;<\/i><i>&mdash;<\/i><a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-us\/people\/smercer\/\"><i><span style=\"color: #0000ff;\">Simon Mercer<\/span><\/i><span class=\"sr-only\"> (opens in new tab)<\/span><\/a><i>, Director of Health and Wellbeing <\/i><i>Microsoft Research Connections&nbsp;<\/i><\/span><\/p>\n<p><span style=\"font-family: verdana,geneva; font-size: medium;\"><b>Learn More<\/b><\/span><\/p>\n<ul>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\"><a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-us\/projects\/bio\/mbf.aspx\"><span style=\"color: #0000ff;\">Microsoft Biology Foundation<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a><\/span><\/li>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\"><a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-us\/downloads\/5ced2711-313a-4dcb-84aa-adb87c9ea0a9\/\"><span style=\"color: #0000ff;\">MBF 2.0 Beta 1 Download<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a><\/span><\/li>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\"><a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/mbf.codeplex.com\/releases\/view\/64936\"><span style=\"color: #0000ff;\">MBF Project on CodePlex<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a><\/span><\/li>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\"><a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-us\/projects\/bio\/training.aspx\"><span style=\"color: #0000ff;\">Microsoft Biology Training<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a><\/span><\/li>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\"><a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-us\/projects\/bio\/mbfcontest.aspx\"><span style=\"color: #0000ff;\">MBF 2.0 Beta 1 Coding Contest<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a><\/span><\/li>\n<li><span style=\"font-family: verdana,geneva; font-size: small;\"><a class=\"msr-external-link glyph-append glyph-append-open-in-new-tab glyph-append-xsmall\" rel=\"noopener noreferrer\" target=\"_blank\" href=\"http:\/\/research.microsoft.com\/en-us\/collaboration\/focus\/health\/default.aspx\"><span style=\"color: #0000ff;\">Health and Wellbeing at Microsoft Research Connections<\/span><span class=\"sr-only\"> (opens in new tab)<\/span><\/a><\/span><\/li>\n<\/ul>\n","protected":false},"excerpt":{"rendered":"<p>On April 19 and 20, the Microsoft Biology Initiative welcomed a small, focused group to the Microsoft Biology Foundation Workshop 2011, held at the Renaissance Computing Institute (RENCI) in Chapel Hill, North Carolina. The workshop was a clinic in the use of the Microsoft Biology Foundation (MBF), an open-source Microsoft .NET library and application-programming interface [&hellip;]<\/p>\n","protected":false},"author":32627,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"msr-url-field":"","msr-podcast-episode":"","msrModifiedDate":"","msrModifiedDateEnabled":false,"ep_exclude_from_search":false,"_classifai_error":"","msr-author-ordering":[],"msr_hide_image_in_river":0,"footnotes":""},"categories":[1],"tags":[194777,194826,195561,196300,196328,196331,196375,196376,196391,196393,196394,196395,196396,196439,196829,196978,197211,197293,197616,197791,197839],"research-area":[],"msr-region":[],"msr-event-type":[],"msr-locale":[268875],"msr-post-option":[],"msr-impact-theme":[],"msr-promo-type":[],"msr-podcast-series":[],"class_list":["post-2633","post","type-post","status-publish","format-standard","hentry","category-research-blog","tag-basf-plant-science","tag-bioinformatics","tag-fasta","tag-mark-smith","tag-mbf-coding-contest","tag-mbf-version-2-0-beta","tag-microsoft-net","tag-microsoft-net-framework","tag-microsoft-biology-foundation-mbf","tag-microsoft-biology-foundation-codeplex","tag-microsoft-biology-foundation-workshop-2011","tag-microsoft-biology-initiative","tag-microsoft-biology-training","tag-microsoft-research-connections","tag-phylip","tag-renaissance-computing-institute-renci","tag-simon-mercer","tag-sra-international","tag-university-of-north-carolina","tag-winter-school-in-mathematical-and-computational-biology","tag-xbox-360-with-kinect","msr-locale-en_us"],"msr_event_details":{"start":"","end":"","location":""},"podcast_url":"","podcast_episode":"","msr_research_lab":[],"msr_impact_theme":[],"related-publications":[],"related-downloads":[],"related-videos":[],"related-academic-programs":[],"related-groups":[],"related-projects":[],"related-events":[],"related-researchers":[],"msr_type":"Post","byline":"","formattedDate":"May 13, 2011","formattedExcerpt":"On April 19 and 20, the Microsoft Biology Initiative welcomed a small, focused group to the Microsoft Biology Foundation Workshop 2011, held at the Renaissance Computing Institute (RENCI) in Chapel Hill, North Carolina. The workshop was a clinic in the use of the Microsoft Biology&hellip;","locale":{"slug":"en_us","name":"English","native":"","english":"English"},"_links":{"self":[{"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/posts\/2633","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/users\/32627"}],"replies":[{"embeddable":true,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/comments?post=2633"}],"version-history":[{"count":1,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/posts\/2633\/revisions"}],"predecessor-version":[{"id":262371,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/posts\/2633\/revisions\/262371"}],"wp:attachment":[{"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/media?parent=2633"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/categories?post=2633"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/tags?post=2633"},{"taxonomy":"msr-research-area","embeddable":true,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/research-area?post=2633"},{"taxonomy":"msr-region","embeddable":true,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/msr-region?post=2633"},{"taxonomy":"msr-event-type","embeddable":true,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/msr-event-type?post=2633"},{"taxonomy":"msr-locale","embeddable":true,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/msr-locale?post=2633"},{"taxonomy":"msr-post-option","embeddable":true,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/msr-post-option?post=2633"},{"taxonomy":"msr-impact-theme","embeddable":true,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/msr-impact-theme?post=2633"},{"taxonomy":"msr-promo-type","embeddable":true,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/msr-promo-type?post=2633"},{"taxonomy":"msr-podcast-series","embeddable":true,"href":"https:\/\/www.microsoft.com\/en-us\/research\/wp-json\/wp\/v2\/msr-podcast-series?post=2633"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}