The 2nd DBCLS BioHackathon: interoperable bioinformatics Web services for integrated applications
Author Information
Author(s): Katayama Toshiaki, Wilkinson Mark D, Vos Rutger, Kawashima Takeshi, Kawashima Shuichi, Nakao Mitsuteru, Yamamoto Yasunori, Chun Hong-Woo, Yamaguchi Atsuko, Kawano Shin, Aerts Jan, Aoki-Kinoshita Kiyoko F, Arakawa Kazuharu, Aranda Bruno, Bonnal Raoul JP, Fernández José M, Fujisawa Takatomo, Gordon Paul MK, Goto Naohisa, Haider Syed, Harris Todd, Hatakeyama Takashi, Itoh Masumi, Kasprzyk Arek, Kido Nobuhiro, Kim Young-Joo, Kinjo Akira R, Konishi Fumikazu, Kovarskaya Yulia, von Kuster Greg, Labarga Alberto, Limviphuvadh Vachiranee, McCarthy Luke, Nakamura Yasukazu, Nam Yunsun, Nishida Kozo, Nishimura Kunihiro, Nishizawa Tatsuya, Ogishima Soichi, Oinn Tom, Okamoto Shinobu, Okuda Shujiro, Ono Keiichiro, Oshita Kazuki, Park Keun-Joon, Putnam Nicholas, Senger Martin, Severin Jessica, Shigemoto Yasumasa, Sugawara Hideaki, Taylor James, Trelles Oswaldo, Yamasaki Chisato, Yamashita Riu, Satoh Noriyuki, Takagi Toshihisa
Primary Institution: Database Center for Life Science, Research Organization of Information and Systems
Hypothesis
How can bioinformatics tools be made more interoperable to support biological research?
Conclusion
The BioHackathon highlighted significant issues in the interoperability of bioinformatics tools, revealing that many necessary functions are still lacking.
Supporting Evidence
- Developers and genome biologists collaborated to address real-world use cases.
- Prototypes were created for workflows addressing specific bioinformatics tasks.
- Significant interoperability issues were identified during the event.
- Participants noted the need for better documentation and compliance with standards.
Takeaway
Scientists are trying to make different bioinformatics tools work better together so researchers can analyze data more easily. They found that there are still many problems to fix.
Methodology
The BioHackathon followed a use-case-driven model where genome biologists explained their data needs, and developers worked collaboratively to address these use cases.
Limitations
The study faced challenges due to the lack of documentation, compliance issues with Web service specifications, and incompatibility between data formats.
Participant Demographics
Participants included software developers and genome biologists from various backgrounds.
Digital Object Identifier (DOI)
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