{"id":5623,"date":"2017-02-13T16:49:31","date_gmt":"2017-02-13T10:49:31","guid":{"rendered":"http:\/\/www.hsu.edu.hk\/?p=5623"},"modified":"2024-01-16T11:59:04","modified_gmt":"2024-01-16T03:59:04","slug":"1743-comp-20170306165119","status":"publish","type":"post","link":"https:\/\/www.hsu.edu.hk\/hk\/1743-comp-20170306165119\/","title":{"rendered":"Computing Research Seminar (2016\/17): \u201cFunctional and composition analysis of microbial community using NGS data\u201d"},"content":{"rendered":"<p><\/p>\n<div class=\"art-article\">\n<p><strong>2017\u5e742\u670813\u65e5 <\/strong><\/p>\n<p><strong>Computing Research Seminar (2016\/17): \u201cFunctional and composition analysis of microbial community using NGS data\u201d<\/strong><\/p>\n<p><BR><\/p>\n<p class=\"MsoNormal\" style=\"text-align: justify; margin-bottom: 0.0001pt; line-height: normal; background-image: initial; background-position: initial; background-size: initial; background-repeat: initial; background-attachment: initial; background-origin: initial; background-clip: initial;\">Speaker: &nbsp;<span style=\"background-image: initial; background-position: initial; background-size: initial; background-repeat: initial; background-attachment: initial; background-origin: initial; background-clip: initial;\">Dr Yanni Sun<o:p><\/o:p><\/span><\/p>\n<p class=\"MsoNormal\" style=\"text-align: justify; margin-bottom: 0.0001pt; line-height: normal; background-image: initial; background-position: initial; background-size: initial; background-repeat: initial; background-attachment: initial; background-origin: initial; background-clip: initial;\"><span style=\"background-image: initial; background-position: initial; background-size: initial; background-repeat: initial; background-attachment: initial; background-origin: initial; background-clip: initial;\">Associate Professor<\/span><o:p><\/o:p><\/p>\n<p class=\"MsoNormal\" style=\"text-align: justify;\"><span style=\"line-height: 18.4px; background-image: initial; background-position: initial; background-size: initial; background-repeat: initial; background-attachment: initial; background-origin: initial; background-clip: initial;\">Michigan State University<o:p><\/o:p><\/span><\/p>\n<p class=\"MsoNormal\" style=\"text-align: justify;\"><span style=\"line-height: 18.4px; background-image: initial; background-position: initial; background-size: initial; background-repeat: initial; background-attachment: initial; background-origin: initial; background-clip: initial;\"><br \/><\/span><\/p>\n<p class=\"MsoNormal\" style=\"text-align: justify;\"><span style=\"line-height: 18.4px; background-image: initial; background-position: initial; background-size: initial; background-repeat: initial; background-attachment: initial; background-origin: initial; background-clip: initial;\">Dr Yanni Sun presented her recent work on conducting composition and functional analysis for microbial community data. The first project was to reconstruct full-length haplotypes in viral quasispecies, which include a population of related but different virus strains. RNA viruses such as HIV, HCV, SARS etc. usually function and evolve as quasispecies. Reconstruction of each strain sequence was highly important to characterise the quasispecies and thus provides clinic-relevant prevention and treatment. Dr Sun presented the method of effectively assemble short reads into full-length viral haplotypes.<o:p><\/o:p><\/span><\/p>\n<p class=\"MsoNormal\" style=\"text-align: justify;\"><span style=\"line-height: 18.4px; background-image: initial; background-position: initial; background-size: initial; background-repeat: initial; background-attachment: initial; background-origin: initial; background-clip: initial;\"><br \/><\/span><\/p>\n<p class=\"MsoNormal\" style=\"text-align: justify;\"><span style=\"line-height: 18.4px; background-image: initial; background-position: initial; background-size: initial; background-repeat: initial; background-attachment: initial; background-origin: initial; background-clip: initial;\">The second project was about improving homology search sensitivity of PacBio data by correcting frameshift errors. Long reads technologies such as PacBio provided promising solutions to study complex microbial communities. However, high sequencing error rate hampered its current application. Dr Sun proposed a new method to correct the errors and improve homology search performance.<\/span><\/p>\n<div style=\"margin-top:10px;margin-left:38px;\">\n<div style=\"width:610px;text-align:center;margin:10px;margin-top:0px;\" ><img src=\"http:\/\/www.hsu.edu.hk\/old\/images\/upload\/COMP\/0973454cd7259b8b708f8405ff3e2573.jpg\" width=\"630\" alt=\"Dr Yanni Sun\"  \/><\/p>\n<div style=\"text-align:center;margin-bottom:5px;line-height:110%;min-height:45px;\">Dr Yanni Sun<\/div>\n<\/div>\n<div style=\"width:610px;text-align:center;margin:10px;margin-top:0px;\" ><img src=\"http:\/\/www.hsu.edu.hk\/old\/images\/upload\/COMP\/c409c25545164620a4de77131bc57b2b.jpg\" width=\"630\" alt=\"Prof Francis Chin, Head of Department of Computing, thanked and presented souvenirs to the guest\"  \/><\/p>\n<div style=\"text-align:center;margin-bottom:5px;line-height:110%;min-height:45px;\">Prof Francis Chin, Head of Department of Computing, thanked and presented souvenirs to the guest<\/div>\n<\/div>\n<\/div>\n<div style=\"height:1px ; clear:both;\"><\/div>\n<\/div>\n<\/div>\n<p><\/p>","protected":false},"excerpt":{"rendered":"2017\u5e742\u670813\u65e5 Computing Research Seminar (2016\/17): \u201cFunctional and composition analysis of microbial community using NGS data\u201d Speaker: &nbsp;Dr Yanni Sun Associate Professor Michigan State University Dr Yanni Sun presented her recent work on conducting composition and functional analysis for microbial community data. The first project was to reconstruct full-length haplotypes in viral quasispecies, which include a [&hellip;]","protected":false},"author":16,"featured_media":7054,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_exactmetrics_skip_tracking":false,"_exactmetrics_sitenote_active":false,"_exactmetrics_sitenote_note":"","_exactmetrics_sitenote_category":0},"categories":[77,10],"tags":[],"topics":[],"month":[300],"_links":{"self":[{"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/posts\/5623"}],"collection":[{"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/users\/16"}],"replies":[{"embeddable":true,"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/comments?post=5623"}],"version-history":[{"count":1,"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/posts\/5623\/revisions"}],"predecessor-version":[{"id":8155,"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/posts\/5623\/revisions\/8155"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/media\/7054"}],"wp:attachment":[{"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/media?parent=5623"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/categories?post=5623"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/tags?post=5623"},{"taxonomy":"topics","embeddable":true,"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/topics?post=5623"},{"taxonomy":"month","embeddable":true,"href":"https:\/\/www.hsu.edu.hk\/hk\/wp-json\/wp\/v2\/month?post=5623"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}