Public symposium of the BioHackathon 2016 will be held at the Metabolome campus of the Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan on Jun 12 (Sun).
Symposium video recordings are available at YouTube (Aug 1st, 2016)
Note for speakers: Please try to leave few minutes for Q&A within a given slot (except for lightning talks).
  •   8:30 Meet up at the hotel lobby
  •   9:00 Registration opens / Coffee
  • 10:00 Introduction and Special Talks
  • 10:00-10:10 Introduction to the BioHackathon 2016
       Toshiaki Katayama Database Center for Life Science, Japan
    10:10-10:30 Welcome address: Institute for Advanced Biosciences
       Masaru Tomita Keio University, Japan
    10:30-10:40 Hacking user interface designs for the effective exploration of biological data
       Kazuharu Arakawa Keio University, Japan
    10:40-10:50 Integrated database “dbTMM”: integration of large-scale data of genomic prospective cohort study in Tohoku Medical Megabank project toward personalized healthcare
       Soichi Ogishima Tohoku Medical Megabank Organization, Japan
  • 10:50 Talks by App Contest Winners
  • 10:50-11:10 MetaExplorere: how to mine data from metagenomics experiments
       Francesco Strozzi Enterome, France
    11:10-11:30 A Wikidata Powered Model Organism Database of Microbes
       Timothy E Putman The Scripps Research Institute, USA
    11:30-11:50 Drug Safety portal
       Juan M Banda Stanford University, USA
  • 11:50 Group photo
  • 12:00 Lunch
  • 13:00 Talks (15min + 5min for questions)
  • 13:00-13:20 Facilitating semantic alignment of EBI services
       Simon Jupp  European Bioinformatics Institute, UK
    13:20-13:40 Progress towards a semantic representation of PubChem
       Evan Bolton National Center for Biotechnology Information, USA
    13:40-14:00 Impact of in the semantic web and interoperability of life sciences data
       Rafael C Jimenez ELIXIR, UK
    14:00-14:20 Providing Model Organism Linked Data From InterMine
       Michel Dumontier Stanford University School of Medicine, USA
    14:20-14:40 disgenet2r: the DisGeNET R package
       Núria Queralt Rosinach Institut Hospital del Mar d'Investigacions Mèdiques, Spain
    14:40-15:00 Public Data Repositories and Standards in Proteomics
       Eric Deutsch Institute for Systems Biology, USA
  • 15:00 Coffee break
  • 15:30 Talks (15min + 5min for questions)
  • 15:30-15:50 Dogma conscious and agnostic sharing of high-throughput data
       Hideya Kawaji RIKEN, Japan
    15:50-16:10 Resequencing against a pan-genome
       Erik Garrison Wellcome Trust Sanger Institute, UK
    16:10-16:30 The Graph Positional Burrows-Wheeler Transform
       Adam NovakUniversity of  California, Santa Cruz, USA
  • 16:30 Lightning talks (5min each)
  • 16:30-16:35  Fast and accurate long read alignment on string graphs
       Hajime Suzuki 
    16:35-16:40 The Global Alliance for Genomics and Health APIs
       Benedict Paten 
    16:40-16:45 Patient matchmaking over a federated network
       Orion Buske 
    16:45-16:50 The Noctua Modeling and other Berkeley BOP software projects
       Seth Carbon 
    16:50-16:55 EpiRR - A registry for reference epigenomes
       Alessandro Vullo 
    16:55-17:00 Omics Discovery Index-Discovering and Linking Public Omics Datasets
       Rafael C Jimenez 
    17:00-17:05 Data Linking with GenboreeKB and the Allele Registry
       Lillian Ashmore 
    17:05-17:10 Database Construction and Functional Varidations for the Metabolic Enzymes in Euglena
       Takeshi Kawashima 
    17:10-17:15 GlyTouCan Design and Development
       Nobuyuki Aoki 
    17:15-17:20 J-phenome: a portal of Japanese phenotype data
       Hiroshi Masuya 
    17:20-17:25 Gamification for establishing biomedical edges in Wikidata.
       Sebastian Burgstaller 
    17:25-17:30 Plant breeding knowledge management using Semantic Web technologies
       Erick Antezana 
    17:30-17:35  Finally reusable data, FRED
       Alexander Garcia
    17:35-17:40 Toward the Experimental Protocol Description Standard 
       Tazro Ohta
    17:40-17:45 BioRuby
       Naohisa Goto 
    17:45-17:50 Traversing class-class relationships for constructing a SPARQL query
       Atsuko Yamaguchi 
    17:50-17:55 Question and Answering over Linked Open Data
       Jin-Dong Kim 
  • 18:00 Bus to the hackathon venue
  • 19:00 Reception party
Live streaming will be available at

Video streaming by Ustream