http://dnagarden.hgc.jp/en/ 2012-05-18T13:11:08+09:00 http://dnagarden.hgc.jp/en/ http://dnagarden.hgc.jp/en/lib/tpl/arctic/images/favicon.ico text/html 2008-03-03T02:07:32+09:00 http://dnagarden.hgc.jp/en/doku.php/2005_link?rev=1204477652&do=diff * PSB 2005 Pacific Symposium on Biocomputing January 4-8, 2005 The Fairmont Orchid, Big Island of Hawaii * APBC2005 The Third Asia-Pacific Bioinformatics Conferences January 17-21, 2005, Singapore * RECOMB 2005 The Ninth Annual International Conference on Research in Computational Molecular Biology text/html 2011-03-21T10:02:22+09:00 http://dnagarden.hgc.jp/en/doku.php/2006_link?rev=1300669342&do=diff * PSB 2006 The Eleventh Pacific Symposium on Biocomputing January 3-7, 2006, Grand Wailea Resort on Maui * APBC2006 The Fourth Asia Pacific Bioinformatics Conference 13-16 Feb, 2006, Taiwan * SAC 2006 The 21st Annual ACM Symposium on Applied Computing text/html 2011-03-21T10:02:22+09:00 http://dnagarden.hgc.jp/en/doku.php/2007_link?rev=1300669342&do=diff * GIW 2007 The 18th International Conference on Genome Informatics Matrix, 30 Biopolis Street, Singapore, December 3-5, 2007 * RECOMB Satellite Conference on Systems Biology November 30 - December 1, 2007 University of California, San Diego * PRIB 2007 text/html 2011-03-21T10:02:23+09:00 http://dnagarden.hgc.jp/en/doku.php/2008_link?rev=1300669343&do=diff * CMSB 2008 International Conference on Computational Methods in Systems Biology October 12 - 15, 2008, Rostock, Germany * ISMB 2008 The 16th Annual International Conference on Intelligent Systems for Molecular Biology July 19 - 23, 2008, Toronto, Canada text/html 2008-03-26T16:32:57+09:00 http://dnagarden.hgc.jp/en/doku.php/abcd?rev=1206516777&do=diff text/html 2008-03-12T19:16:25+09:00 http://dnagarden.hgc.jp/en/doku.php/about_miyano_lab?rev=1205316985&do=diff text/html 2009-07-30T03:00:20+09:00 http://dnagarden.hgc.jp/en/doku.php/access?rev=1248890420&do=diff Access from the nearest station Access Map * A　Shirokanedai station of Namboku Line or Mita Line. Costs: 160 yen from Meguro. * B　From east exit of JR Meguro station of Yamanote Line , 15 minutes by walk. From east exit of JR Meguro station of Yamanote Line, take the bus (No.93) for Ooi-keibajo and get off at Shirokanedai-eki-mae bus stop. Costs: 200 yen. text/html 2010-02-11T17:07:45+09:00 http://dnagarden.hgc.jp/en/doku.php/conferences?rev=1265875665&do=diff Conferences * 2010 GIW 2010 (21st International Conference on Genome Informatics) December 16-18, 2010. Hangzhou, China CMSB2010 (8th Conference on Computational Methods in Systems Biology ) September 29 - October 1, 2010 Trento, Italy BSB2010 (V Brazilian Symposium on Bionformatics) August 30 - September3, 2010. Rio de Janeiro, Brazil text/html 2010-04-28T14:34:36+09:00 http://dnagarden.hgc.jp/en/doku.php/contact?rev=1272432876&do=diff 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639 JAPANPhone+81-3-5449-5615Fax+81-3-5449-5442E-mailmiyanolab-jimu at edelweiss．hgc．jp text/html 2008-04-21T12:15:28+09:00 http://dnagarden.hgc.jp/en/doku.php/course_after_complate?rev=1208747728&do=diff Postgraduate careers Post Master course * Assistant Professor - Institute of Medical Science, The University of Tokyo * Doctoral course - Graduate School of Information Science and Technology, The University of Tokyo * Doctoral course - Graduate School of Informatics - Kyoto University * Doctoral course - Boston University * Research Fellowship for Young Scientists - Japan Society for Promotion of Science * NTT Science and Core Technology Laboratory Group * NTT Data Corporation … text/html 2011-03-21T10:02:22+09:00 http://dnagarden.hgc.jp/en/doku.php/education?rev=1300669342&do=diff * Genetics Video by Roche text/html 2008-06-16T19:52:09+09:00 http://dnagarden.hgc.jp/en/doku.php/entrance_exam_c?rev=1213613529&do=diff How to join Miyano Lab (entrance exam etc.) There are two ways to be accepted at Miyano Lab for PhD/MS Study: * To be approved by the entrance examination of Department of Computer Science in the Graduate School of Information Science and Technology of the University of Tokyo. text/html 2010-11-12T04:59:16+09:00 http://dnagarden.hgc.jp/en/doku.php/home?rev=1289505556&do=diff [メンバー] * Dec. 1 2010: We have released the open source large-scale gene network estimation software SiGN-SSM. Please visit the SiGN-SSM web site for details. * Nov. 26 2010: Alok Sharma joined our laboratory. * Jun. 1 2010: Georg Tremmel joined our laboratory. * Apr. 1 2010: Shuichi Kawano joined our laboratory. * Feb. 4 2010: The Second NUS-UT Workshop on Computational Systems Biology (Date: February 22-23, 2010, Place: The Second Building, The Institute of Medical Science, The Unive… text/html 2008-06-13T14:57:57+09:00 http://dnagarden.hgc.jp/en/doku.php/hotel?rev=1213336677&do=diff Distance fromShirokanedai stationClassHotel NameAddress/Phone/FaxWeb Page0.412kmresort hotelSheraton Miyako Hotel Tokyo1-1-50,Shirokanedai Minato-ku　Tokyo108-8640,JapanPhone:03-3447-3111 Fax:3447-31330.769kmresidential hotelWeekly Mansion Shirokane5-10-15,Shirokanedai Minato-kuTokyo108-0072,JapanPhone:03-3443-1711 Fax:03-3443-53941.057kmresort hotelThe Westin Tokyo1-4-1,Mita Meguro-ku Tokyo153-8580,JapanPhone:03-5423-70001.076kmresort hotelGrand Prince Hotel New Takanawa3-13-1,Takanawa Minato-ku… text/html 2011-03-21T10:02:20+09:00 http://dnagarden.hgc.jp/en/doku.php/info?rev=1300669340&do=diff Course after complate 今までに在籍した学生の進路は次のようになっています。 * 学振 * 研究生 * 客員研究生 * 修士修了 　　　-本研究室助手 　　　-本研究室博士進学 　　　-東大医学部 　　　-東大院XXXX博士進学 　　　-京大院情報学博士進学 　　　-Boston University 大学院 　　　-NTT研究所 　　　-日立中央研究所 　　　-XXXベンチャー 　　　-NTTデータ 　　　-NEC text/html 2011-03-21T10:02:24+09:00 http://dnagarden.hgc.jp/en/doku.php/introduction?rev=1300669344&do=diff Staff and Mentorship Staff The following staffs supervise students: * Satoru Miyano, Professor, Head of laboratory, Bioinformatics, Systems Biology * Seiya Imoto, Associate Professor, Statistics, Bioinformatics, Statistical Analysis of Genomic Data * Masao Nagasaki, Assistant Professor, Bioinformatics, Systems Biology, Algorithm, Software Development * Rui Yamaguchi, Project Lecturer, Statistics, Bioinformatics, Computational Science, Systems Biology * Yoshinori Tamada, Project Assi… text/html 2011-03-21T10:02:21+09:00 http://dnagarden.hgc.jp/en/doku.php/jinzai?rev=1300669341&do=diff 教務補佐員の募集（非常勤職員：1名） 次の条件のいくつかを満たしている人 (プログラマー) を募集しています． * Java でプログラム経験のあること () * XML を理解していること * UNIX 系 OS の使用経験のあること * その他プログラム経験があること (C, C++, Perl, Ruby など) text/html 2008-12-21T13:01:05+09:00 http://dnagarden.hgc.jp/en/doku.php/links?rev=1229832065&do=diff Academic Societies * JSBi Japanese Society for Bioinformatics * AASBi Association of Asian Societies for Bioinformatics * ISCB International Society for Computational Biology text/html 2010-02-03T03:10:01+09:00 http://dnagarden.hgc.jp/en/doku.php/lunch?rev=1265134201&do=diff Name/Phone Rate(Lunch) Access(from Shirokanedai station)Details 槐樹:Enjyu [tea-ceremony dishes] Phone:03-3443-3111 2,625 Yen ～ It is 1 minute by walk. Details OZAWA [French] Phone:03-3442-1171 3,670 Yen ～ It is 3 minutes by walk. 京料理京ゆば麺うどん さくらさくら :Sakura Sakura [Home cooking] Phone:03-3440-7316 840 Yen ～ It is 5 minutes by walk. Details PER REGALO [Italian] Phone:03-5789-9858(Pizzeria) Phone:03-5789-9866(Ristorante) 1,000 Yen ～ It is 1 minutes by walk. Details Boschtta… text/html 2008-06-16T19:58:36+09:00 http://dnagarden.hgc.jp/en/doku.php/master_s_doctoral_dissertation?rev=1213613916&do=diff Dissertation Master Thesis NameResearch TitleKaname Kojima2007 Master Course (Department of Computer Science, Graduate School of Information Science and Technology, The University of Tokyo) Efficient Grid Layout Algorithm for Biological Networks with Various Biological AttributesEric Perrier2007 Master Course (Department of Computer Science, Gradudate School of Information Science and Technology, The University of Tokyo) Finding Optimal Bayesian Network Based on Super-structureMitsuru Kato200… text/html 2011-12-27T13:09:01+09:00 http://dnagarden.hgc.jp/en/doku.php/members?rev=1324958941&do=diff Laboratory of DNA Information AnalysisProfessorSatoru MiyanoAssociate ProfessorSeiya ImotoAssistant ProfessorMasao NagasakiTechnicianAyumu SaitoProject Assistant ProfessorYoshinori TamadaProject Assistant ProfessorTeppei ShimamuraPost-Doctoral FellowAtsushi NiidaPost-Doctoral FellowShuichi KawanoPost-Doctoral FellowChen LiPost-Doctoral FellowAndre FujitaPost-Doctoral FellowGeorg TremmelPost-Doctoral FellowAlok SharmaTechnical StaffEmi IkedaTechnical StaffKazuko UenoTechnical StaffYayoi SekiyaSec… text/html 2008-05-30T06:03:17+09:00 http://dnagarden.hgc.jp/en/doku.php/one_day_of_student?rev=1212094997&do=diff Lab Life * Case 1: Master Course Student “A” timeschedule8:00Wake Up!8:30Breakfast10:00～Data Analysis13:00～14:00Tuesday, Shirokanedai lunch with Miyano lab members16:00～Discussion with project members and research16:30Data Analysis19:00～20:00Dinner at School's cafe with Miyano lab members25:30Go home, and have night snack25:00Go to bed * Case 2: Doctoral Course Student “B” text/html 2008-04-21T12:17:44+09:00 http://dnagarden.hgc.jp/en/doku.php/postgraduate_careers?rev=1208747864&do=diff Postgraduate careers Post Master course * Assistant Professor - Institute of Medical Science, The University of Tokyo * Doctoral course - Graduate School of Information Science and Technology, The University of Tokyo * Doctoral course - Graduate School of Informatics - Kyoto University * Doctoral course - Boston University * Research Fellowship for Young Scientists - Japan Society for Promotion of Science * NTT Science and Core Technology Laboratory Group * NTT Data Corporation … text/html 2008-06-20T21:40:38+09:00 http://dnagarden.hgc.jp/en/doku.php/projects?rev=1213965638&do=diff Cell Illustrator The aim of this Cell Illustrator Project is to supply a standard in silico tool for biologist working in bench. By using this software, with easy drug and drop based operations, user can model, simulate, visualize and analyze your favorite biological pathways, e.g. metabolic pathway, signal trausduction pathway, gene regulatory network, cell-cell interactions. text/html 2012-02-19T11:45:41+09:00 http://dnagarden.hgc.jp/en/doku.php/publications?rev=1329619541&do=diff 2012 * Kojima K, Imoto S, Yamaguchi R, Fujita A, Yamauchi M, Gotoh N, Miyano S. Identifying regulational alterations in gene regulatory networks by state space representation of vector autoregressive models and variational annealing. BMC Genomics. 13(Suppl 1):S6, 2012. * Okayama H, Kohno T, Ishii1 Y, Shimada Y, Shiraishi K, Iwakawa R, Furuta K, Tsuta K, Shibata T, Yamamoto S, Watanabe S, Sakamoto H, Kumamoto K, Takenoshita S, Gotoh N, Mizuno H, Sarai A, Kawano S, Yamaguchi R, Miyano S, Yoko… text/html 2009-03-24T20:01:10+09:00 http://dnagarden.hgc.jp/en/doku.php/research?rev=1237892470&do=diff The recent advances in biomedical research have been producing large-scale, ultra-high dimensional, ultra-heterogeneous data. Due to these post-genomic research progresses, our current mission is to create computational strategy for systems biology and medicine towards translational bioinformatics. With this mission, we have been developing computational methods for understanding life as system and applying them to practical issues in medicine and biology. Our activities and contributions since … text/html 2008-05-23T09:18:26+09:00 http://dnagarden.hgc.jp/en/doku.php/research_equipment?rev=1211501906&do=diff Equipment & Environments PCUsually, you are supplied with a desktop PC and a laptop, both configured under request.Desktop PC20～30inch monitorｘ1～2Laptop1OSWindows, Linux, Mac OS, etcDeskArea91x182cmReferenceIf you need any book, the lab will provide it for you.Refresh roomWe have a nice comfortable large bed.GymAt Miyano's Lab., we have 1)Exercising bar 2)Dumbbell(20kg) 3)Rowing machine. text/html 2008-12-25T08:44:35+09:00 http://dnagarden.hgc.jp/en/doku.php/sidebar?rev=1230162275&do=diff * Home * Intro to Miyano lab * Research equipment * To Student * Entrance exam * Careers * Dissertation * Research * Software * Members * Publications * Links * Conferences * Education * Access * Lunch Map * Accommodation text/html 2009-07-12T02:03:07+09:00 http://dnagarden.hgc.jp/en/doku.php/sign?rev=1247331787&do=diff News Release August 11 2009: The world's largest optimal Bayesian network structure successfully computed The laboratory of DNA Information Analysis (Laboratory Head: Prof. Satoru Miyano) at Human Genome Center, Institute of Medical Science, University of Tokyo, today announced that they have succeeded in computing the world's largest optimal Bayesian network structure search (node size = 30) using the HGC supercomputer system. text/html 2008-03-17T03:13:18+09:00 http://dnagarden.hgc.jp/en/doku.php/sinro?rev=1205691198&do=diff text/html 2010-11-02T08:15:00+09:00 http://dnagarden.hgc.jp/en/doku.php/software?rev=1288653300&do=diff SiGN-SSM is open source gene network estimation software able to run in parallel on PCs and massively parallel supercomputers. The software estimates a state space model (SSM), that is a statistical dynamic model suitable for analyzing short time and/or replicated time series gene expression profiles. SiGN-SSM implements a novel parameter constraint effective to stabilize the estimated models. Also, by using the supercomputers, it is able to determine the gene network structure by the statistica… text/html 2008-05-23T15:09:14+09:00 http://dnagarden.hgc.jp/en/doku.php/the_cost_of_living?rev=1211522954&do=diff Example: Master course student living with family IncomeBreakdownExpenseBreakdown80,000yenPart-time job etc20,000yenFood cost etc0yenResearch assistance etc30,000yenSports, travel (Subtotal) (Subtotal) Balance30,000yenSavings etc A case of a doctoral course student living with family ExpenseBreakdown10,000 yenLunch and snacks3,000 yenCell phone bill7,000 yenEntertainment expense(Subtotal) 20,000 yen Example B IncomeBreakdownExpenseBreakdown120,000 yenScholarship30,000 yenFood cost80,000 yenPart… text/html 2008-05-23T15:19:10+09:00 http://dnagarden.hgc.jp/en/doku.php/to_student?rev=1211523550&do=diff Message * Yosuke Hatanaka:Master course student in Department of Medical Science, Graduate School of Frontier Sciences, University of Tokyo 　With 24 hrs, 365days open lab, we can come/go whenever we want to research. It is your responsibility how you arrange your research life here. Most of the research proceeds project-based, therefore if you are/aren't a super programmer/mathmatician, or any background, you will find something to work upon from the day1. I like the chemistry here that e…