- From: Susanna-Assunta Sansone <sa.sansone@gmail.com>
- Date: Tue, 09 Nov 2010 12:07:12 +0000
- To: Christoph Grabmuller <grabmuel@ebi.ac.uk>
- CC: mdmiller <mdmiller53@comcast.net>, "M. Scott Marshall" <mscottmarshall@gmail.com>, HCLS <public-semweb-lifesci@w3.org>
Hi Christoph, on the topic of annotation tool... On 09/11/2010 10:09, Christoph Grabmuller wrote: > 3) I like the Excel to RDF converter, but it relies on the user >> entering correct namespaces, names and database ids from various >> places in a syntactically correct way. This requires knowledge of the >> correct databases to choose and the 'correct' uri (many variants to >> chose from). >> If people just enter strings we are not all that far away from MAGE-TAB. >> >> * i'm involved in an open source project, Annotare, that seeks to put a nice >> UI on top of creating MAGE-TAB documents for a bench scientist. part of >> that is use of the NCBO tools to make it easy for the creator of the >> document to go fetch the appropriate term from the appropriate >> onotlogy/vocabulary. version one has support for EFO built-in, one of the >> main goals for version 2 is to make this much easier and much broader. >> --mm > That looks like a very useful tool. Out of curiosity: how are the > ontologies/vocabularies loaded? > -cg there is another set of annotation tools, ISA tools, that already support a variety of ontologies; these are accessed dynamically via BioPortal and OLS web services. The tools convert into MAGE-Tab, but also Pride-XML and SRA-XML (SOFT is ongoing) and we have just start working with HCLS-SD subgroup (Sudeshna Das) to export in RDF. Info and papers at: www.isa-tools.org; let me know if you intersted, can provide you with more info. Thanks, Susanna ------------------------------------------------------------- Susanna-Assunta Sansone, PhD Team Leader Projects: www.isa-tools.org|www.mibbi.org|www.biosharing.org University of Oxford Tel: +44(0)1865 610622 Oxford e-Research Center Fax: +44(0)1865 610612 7 Keble Road, Oxford skype: susanna-a.sansone OX1 3QG, UK uk.linkedin.com/in/sasansone -------------------------------------------------------------
Received on Tuesday, 9 November 2010 12:11:36 UTC