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 schema.org 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 |
|