|== Goals ==
| * What is the best solution for integration of the web services?
| * Is the list of BioMOBY objects is clean enough to treat with the client program? How about the inheritance?
| * Why BioMOBY doesn't use SOAP's complexType instead of the BioMOBY triple (original XML) data structure?
| * Is there any performance bottleneck in the current system of the BioMOBY?
| * How to integrate arising new data structures such as pathways, metabolomics, and proteomics?
| * What can be done with the Open Bio* projects to support interoperability?
| * How to integrate non-MOBY web service providers (Japanese DDBJ, KEGG, PDBj, CBRC services + EBI, NCBI services)
|28|| ||But the set of data types and methods gathered in BioMOBY looks redundant and complicated to generate typical workflows for end users.
|29|| ||Besides, some of the major service providers are not included in the BioMOBY framework yet.
|30|| ||In DBCLS, we are trying to develop a new proxy server which translates user's request for the appropriate web service provider.
|31|| ||The server will also converts the query and result to the simplified/unified data types, say "50 basic bioinformatics data types" (might be a subset of BioMOBY).
|32|| ||Anyway, interoperability can be significantly improved if all Bio* libraries supports them and we just need a practical environment for bioinformatics.
|33|| ||Thus, we believe gathering all web service providers and Open Bio* library developers to disucuss about the standardization of objects and methods among web services and programming languages must benefit usability and interoperability for the life science in the next era.
| ||19||However, there are many major service providers are not yet participated in the BioMOBY framework.
| ||20||Especially, there are several web service providers in Japan such as DDBJ, KEGG, PDBj and CBRC but none of them are not integrated in any context.
|35|| || * Utilizing every bioinformatics web services by 4 major computer languages
|36|| || * Standardizing the objects and methods in bioinformatics web services
|37|| || * Creating compatible classes for sequences, expressions, pathways etc. among Open Bio* libraries
| ||22||Thus, at [http://www.dbcls.jp/en/ DBCLS], we started to develop a new proxy server which translates user's request for the appropriate web service provider.
| ||23||If all [http://www.open-bio.org/ Open Bio*] libraries support BioMOBY and other service providers, interoperability of these services can be significantly improved.
| ||24||Here, we need agreement for the future web services with every web service providers and client developers.
| ||26||We believe gathering all web service providers to disucuss about the standardization of objects and methods among web services,
| ||27||and Open Bio* library developers from different programming languages to discuss about the implementation of the common infrastructure,
| ||28||must benefit usability and interoperability for the life science in the next era.
| ||30||For this purpose, we hope to organize a BioHackathon specialized for the web services in 2008.
| ||32|| * Standardizing the objects and methods in bioinformatics web services (BioMOBY)
| ||33|| * Discuss about the best solution of the framework and ontologies for the future in life science
| ||34|| * Utilizing every bioinformatics web services by 4 major computer languages (Perl, Python, Ruby, Java)
| ||35|| * Creating compatible classes for sequences, expressions, pathways etc. among Open Bio* libraries
|=== BioMOBY ===
|I would like to ask Dr. Mark Wilkinson to give us a lecture for the following objectives:
| * to make every web service providers understand what does the BioMOBY is
| * current status of the BioMOBY project and how the sites integrated by BioMOBY works
| * current status of the semantic MOBY and its practical usages or goals
|and I would like to discuss about:
| * what kind of efforts have been made to popularize BioMOBY
| * why all web services are not compatible with BioMOBY yet?
| * what is the strength of BioMOBY compared with non-BioMOBY web services?
| * what kind of improvements can be made from now?
| * which languages can be used to create BioMOBY clients (only Perl and Java for now?)
| * refine the ontology for data types and methods
| * implement BioMOBY client library in every Bio* projects
| * utilize BioMOBY in NCBI, EBI, KEGG, DDBJ etc. or to create a proxy server which converts these services compatible with BioMOBY
|=== Open Bio* ===
|to be written...
|=== Clients (Taverna, G-language etc.) ===
|to be written...
|=== Web Service providers ===
|to be written...
| * How to increase the number of SOAP compliant services (tools/databases)