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Kino : Making Semantic Annotations Easier

Kino : Making Semantic Annotations Easier. Ajith Ranabahu # , Priti Parikh # , Maryam Panahiazar # , Amit Sheth # and Flora Logan- Klumpler * # Ohio Center of Excellence in Knowledge-enabled Computing ( kno.e.sis ) * Sanger Institute and University of Cambridge, UK. What is Kino ?.

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Kino : Making Semantic Annotations Easier

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  1. Kino : Making Semantic Annotations Easier AjithRanabahu#, Priti Parikh#, MaryamPanahiazar#, Amit Sheth#and Flora Logan-Klumpler* # Ohio Center of Excellence in Knowledge-enabled Computing (kno.e.sis) * Sanger Institute and University of Cambridge, UK

  2. What is Kino ? • A search engine of sort currently specialized for scientific domains • Semantic Annotation (using SA-REST) for services and documents (or any Web resources) • Indexing system • Uses SA-REST, Faceted search • integrates with NCBO • Tools include browser plugin & back-end server

  3. Two use cases • service lookups: eg: BioCatalogue returns about 75 Web services for the search term “gene prediction”. However, it returns only 20 Web services for the term “gene finding”, even though gene prediction and gene finding are synonyms. • supporting the whole cycle of annotation and curation at Sangers

  4. Use case 1 : Service lookups for gene data Genome Genome Sequencing Sequenced Genome Gene Prediction Detailed Information about the Gene • Gene sequence Comparison • Cellular location determination • Function prediction Predicted Gene Tagging is not consistent, keyword based Lookups are not accurate and do not take synonyms into account ! Find Web services using a service catalog for these operations

  5. Use case 2 : Scientific Document Annotation Submit annotations to the database Read Published Paper yes Are the annotations complete ? Add notes via a browser plugin Look up terms and update the notes no Long and cumbersome cycle of term lookup and updates. This done by scientists – is there a way to make this process easier for them ? Courtesy of Sanger Institute UK

  6. How does it work ? Kino browser based annotation Kino Search Interfaces Kino Browser Plugin Other Front -ends Kino Web Front-end Web Pages Kino Search API SOLRJ Kino Index API NCBO Ontology Access API NCBO Ontology Repository SOLR Web Interface Lucene Index NCBO REST Service Kino Back-end

  7. What did we learn? • Back-end automatically including even the synonyms make a significant improvement in search recall. • Having integrated tooling enables faster cycles in scientific literature annotations.

  8. Check out our poster for more details Video demo at http://wiki.knoesis.org/index.php/Kino Paper at http://knoesis.org/library/resource.php?id=1553

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