The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows
| Autor: | Keiichiro Ono, Raoul J. P. Bonnal, Lukasz Salwinski, Kazuharu Arakawa, Shinobu Okamoto, Daron M. Standley, Rene Ranzinger, Hiroyuki Nakamura, Richard Bruskiewich, Jan Christian Bryne, Toshihisa Takagi, Richard Holland, Chikashi Nobata, Michael Kuhn, Florian Reisinger, Paul M. K. Gordon, Stuart Owen, Yasukazu Nakamura, Yoshinobu Kano, Pjotr Prins, Tamotsu Noguchi, Toshiyuki Tashiro, Arnaud Kerhornou, Yasunori Yamamoto, Heikki Lehväslaiho, Tom Oinn, Oswaldo Trelles, Andreas Groscurth, Hilmar Lapp, Christian M. Zmasek, Martin Senger, Akira Funahashi, Rutger A. Vos, Shuichi Kawashima, Lord H. Barboza, Kiyoshi Asai, William S. York, Edward A. Kawas, Atsuko Yamaguchi, Bruno Aranda, Tatsuya Nishizawa, Alex Gutteridge, Mark Wilkinson, José M. Fernández, Kiyoko F. Aoki-Kinoshita, Jan Aerts, Naohisa Goto, Yasumasa Shigemoto, Matthew Pocock, Akira R. Kinjo, Mark Schreiber, Evangelos Pafilis, Hideaki Sugawara, Toshiaki Katayama, Eri Kibukawa, Hong-Woo Chun, Mitsuteru Nakao |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2010 |
| Předmět: |
Standardization
Computer Networks and Communications WS-I Basic Profile Computer science EPS-2 Interoperability Services computing Health Informatics Client Service provider computer.software_genre Bioinformatics Data science Computer Science Applications World Wide Web Workflow Life Science Web service Laboratory of Nematology computer Laboratorium voor Nematologie Information Systems |
| Zdroj: | Journal of Biomedical Semantics, 1 Katayama, Toshiaki; Arakawa, Kazuharu; Nakao, Mitsuteru; Ono, Keiichiro; Aoki-Kinoshita, Kiyoko F; Yamamoto, Yasunori; et al.(2010). The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. Journal of Biomedical Semantics, 1(1), 8. doi: http://dx.doi.org/10.1186/2041-1480-1-8. Retrieved from: http://www.escholarship.org/uc/item/6v60h2hh Journal of Biomedical Semantics 1 (2010) |
| ISSN: | 2041-1480 |
| Popis: | Web services have become a key technology for bioinformatics, since life science databases are globally decentralized and the exponential increase in the amount of available data demands for efficient systems without the need to transfer entire databases for every step of an analysis. However, various incompatibilities among database resources and analysis services make it difficult to connect and integrate these into interoperable workflows. To resolve this situation, we invited domain specialists from web service providers, client software developers, Open Bio* projects, the BioMoby project and researchers of emerging areas where a standard exchange data format is not well established, for an intensive collaboration entitled the BioHackathon 2008. The meeting was hosted by the Database Center for Life Science (DBCLS) and Computational Biology Research Center (CBRC) and was held in Tokyo from February 11th to 15th, 2008. In this report we highlight the work accomplished and the common issues arisen from this event, including the standardization of data exchange formats and services in the emerging fields of glycoinformatics, biological interaction networks, text mining, and phyloinformatics. In addition, common shared object development based on BioSQL, as well as technical challenges in large data management, asynchronous services, and security are discussed. Consequently, we improved interoperability of web services in several fields, however, further cooperation among major database centers and continued collaborative efforts between service providers and software developers are still necessary for an effective advance in bioinformatics web service technologies. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|