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    Archived pages: 121 . Archive date: 2013-11.

  • Title: SADI
    Descriptive info: .. SADI.. Find.. Integrate.. Analyze.. About SADI.. How it works.. Show me.. Building services.. Resources.. News.. Training.. Personalized Medicine from a SADI perspective.. posted by.. markw.. on.. April 5, 2013.. at.. 11:23 pm.. The SADI Personal Health Lens: A Web Browser-Based System for Identifying Personally Relevant Drug Interactions.. describes the prototype Browser-embedded SADI/SHARE workflow that we built at the end of the CANARIE funding.. The idea is to text-mine a Web page (any Web page) for health-related information using a SADI workflow, and then compare the information in that page to a local database of patient clinical data, using reasoning and services to detect things like adverse drug interactions, etc.. The Web page is then dynamically marked-up with this information such that the health information in that page becomes personalized.. No comments.. Tags:.. Health.. ,.. health lens.. personalized medicine.. text mining.. workflow.. International Innovation article on SADI/SHARE.. January 22, 2013.. 5:01 am.. International Innovation Healthcare just published an article on SADI/SHARE.. It s in.. this edition.. and starts on page 75 (of the magazine, page 77 of the page-index at the bottom of the screen).. International Innovation.. press.. The formal SADI Spec.. October 30, 2012.. 10:37 am.. This doc was prepared by Ben Vandervalk and submitted to IETF, but bounced - they felt it was out-of-scope for the IETF s domain of interest.. It will be re-submitted to another organization who (by their rules) must remain un-named.. The content will be the same, just different formatting.. ftp://ftp.. bme.. hu/documents/internet-drafts/draft-bvandervalk-sadi-00.. txt.. Comments are very welcome!.. specification.. OWL Domain Models as Abstract Workflows.. October 4, 2012.. 4:24 am.. The publication from the Wilkinson lab:.. OWL Domain Models as Abstract Workflows.. describes how  ...   datafaqs.. SADI paper is out.. melanie.. October 31, 2011.. 11:56 am.. The Semantic Automated Discovery and Integration (SADI) Web service Design-Pattern, API and Reference Implementation.. Mark D Wilkinson.. Benjamin Vandervalk.. and.. Luke McCarthy.. The main.. SADI paper.. is now out in the Journal of Biomedical Semantics.. Photo by.. peterhoneyman.. 1 comment.. SADI plugin for Taverna 2.. 3.. October 21, 2011.. 9:46 am.. The.. Semantic Automated Discovery and Integration (SADI).. and Taverna teams are pleased to announce the release of the SADI plugin for Taverna 2.. SADI is a set of standards-compliant best practices that simplify interoperability between semantic Web services.. The SADI codebase make it easy for people to deploy services that adhere to the SADI framework practices.. The SADI plugin allows semantic services to be accessed from Taverna.. The plugin has been developed by the SADI team (with the support of the.. Genome Canada Bioinformatics Platform.. ).. The SADI plugin is available as a prototype plugin.. For details on how to install plugins see:.. mygrid.. org.. uk/dev/wiki/display/taverna/Installing+plugins.. Documentation on the SADI plugin, including a link to a tutorial on SlideShare is available on the SADI wiki:.. http://code.. google.. com/p/sadi/wiki/TavernaPlugin.. If you have any problems or questions about the SADI plugin or need help, please contact.. sadi-discuss@googlegroups.. com.. Presentations at CSWS 2011.. August 15, 2011.. 11:15 am.. Slides from the.. 3rd Canadian Semantic Web Symposium.. (CSWS2011) presentations are now online:.. -.. Leveraging SADI Semantic Web Services to Exploit Fish Ecotoxicology Data.. SADI for GMOD: Semantic Web Services for Model Organism Databases.. Older entries.. Development of SADI is generously supported by.. CANARIE.. the Heart and Stroke Foundation of B.. C.. and Yukon.. the Canadian Institutes of Health Research.. , and.. Microsoft Research..

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  • Title: SADI » About SADI
    Descriptive info: SADI - Semantic Automated Discovery and Integration.. Are you a data or service provider?.. SADI is a framework for discovery of, and interoperability between, distributed data and analytical resources.. It combines simple, stateless, GET/POST-based Web Services with standards from the W3C Semantic Web initiative.. The objective of SADI is to make it easy for data and analytical tool providers to quickly make their resources available on the Semantic Web with minimal disruption to their usual practices.. SADI is quite a distinct technology in that.. there s nothing to it.. literally! SADI avoids creating new technologies or non-standard Web infrastructure (e.. g.. , message formats).. It simply defines an open set of best-practices and conventions, within the spectrum of existing standards, that allow for a high degree of semantic discoverability and interoperability between participating services.. Moreover, many of  ...   to provide their resources to you in a much more intuitive way.. This means that the software you use to interact with these resources will also become smarter when it is SADI-enabled, because SADI is specifically designed to think the way you think.. If there s a resource that you would like to see available through SADI, contact us, or contact your IT service provider.. If there s a software tool that you think would benefit from being SADI-enabled,.. tell us about it.. , or write to the provider of that tool with your request! The open-source SADI project provides a place where participants can submit software and/or ontological tools that adhere to these conventions, and can be used by others.. This helps to spread the word and make it easier for new resources to become semantically interoperable..

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  • Title: SADI » How it works
    Descriptive info: SADI input and output classes.. Synchronous SADI services.. Asynchronous SADI Services.. Above are links to specific code examples for Synchronous and Asynchronous services, as well as a general discussion of what considerations to have in-mind when designing input and output OWL Classes or SADI.. The following is a brief summary of the SADI framework.. For complete information, see Mark D Wilkinson, Benjamin Vandervalk, and Luke McCarthy,.. SADI Semantic Web Services – ‘cause you can’t always GET what you want!.. , presented at Semantic Web Services in Practice, Singapore, 2009.. (or.. watch the presentation on SlideShare.. ).. Conventions and Best Practices.. SADI does not define new standards or technologies, it simply defines a set of standards-compliant best practices that dramatically enhance interoperability between informatics resources and the ability of end-users to discover and access the right resource at the right time.. The key conventions proposed by SADI are:.. SADI Services consume and provide data via simple HTTP POST and GET.. SADI Services consume and produce data in.. RDF.. format.. This allows SADI Services to exploit existing.. reasoners.. SPARQL.. query engines to enhance interoperability between Services and the interpretation of the data being passed between them.. Service interfaces (i.. e.. , Inputs and Outputs) are defined in terms of.. OWL-DL.. classes; the property restrictions on these OWL classes define what specific data elements are required by the Service and what data will be provided by the Service, respectively.. Input RDF data - data that is compliant with the Input OWL Class - is decorated or annotated by the service provider to include new properties.. These properties will (of course) be a function of the lookup/analytical operations performed by the Web Service.. Importantly, discovery of SADI Services can include searches for the  ...   advantage of the added semantic behaviours).. Our observations suggest, however, that almost all services currently available in the bioinformatics space have a SADI-like behaviour that easily maps onto the SADI conventions.. Databases.. SADI can be used to expose databases (both traditional relational databases as well as the newer triple-stores) as discoverable Semantic Web Services.. When viewed this way, SADI is a source of individual cells (in a traditional database) or of individual triples (in a triplestore).. This may sound odd - why would you want to provide access on a cell-by-cell or triple-by-triple basis when you could more efficiently simply expose the query interface (SQL or SPARQL) on the Web? The short answer is that, historically, few data providers have ever exposed their database for external queries - they almost always utilize some form of limited query interface.. The reason for this is obvious - the service provider is protected from potentially crippling erroneous or malicious queries.. Though current trends have led to data providers exposing their triple-stores on the Web as SPARQL endpoints, we believe that the same barriers will eventually apply, and that open query interfaces will not be widely available.. Using SADI Services, you have the ability to:.. distribute incoming queries over your compute resources (e.. your farm).. prevent malicious queries, since queries for individual triples cannot be nonsensical.. implement fine-grained security policies where certain parts of your database (triple/cells) are only available to certain requesters.. We are in the process of creating a simple tool that will instantly transform your existing triple-store as a set of SADI services, and hope to create a similar wrapper for traditional relational databases.. More information.. Come to the.. SADI training course.. in Fredericton, New Brunswick, on May 19-20th, 2011..

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  • Title: SADI » Show me
    Descriptive info: SADI is a set of conventions for the deployment of middleware, and as such it is not possible to show SADI directly; however, we have created an example application that utilizes the SADI middleware and SADI Services to achieve a data discovery and integration task that, to our knowledge, has never been possible before - resolving a database query..  ...   this demonstration client, the.. framework allows a user to query and reason over an imaginary database (RDF graph) containing all of the information that would be obtained if you submitted every conceivable input to every conceivable Service.. Clearly such a database doesn t exist (nor could it), but using SADI we can query that database as if it did!..

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  • Title: SADI » Building services
    Descriptive info: What is a SADI service?.. Building a SADI service in Java.. The best way to get involved with SADI is to jump right in and start adding services.. in Java.. or.. in Perl.. JAVA:.. See.. BuildingServicesInJava.. PERL:.. BuildingServicesInPerl.. Protege GUI:.. To make it even easier, there is a.. SADI Plug-in to the popular Protege ontology editor.. - simply drag-n-drop ontology nodes into the SADI interface and it will write the  ...   once you ve deployed it! The plug-in creates services in either Perl (with SADISeS installed - see above), or in Java.. To install the Protege plugin, just open the Plug-ins menu on the Protege main screen and select SADI from the list.. HELP!.. For help with developing your SADI services, ask in the.. SADI developers Google group.. SADI source code is available from the.. SADI project page.. on Google Code..

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  • Title: SADI » Resources
    Descriptive info: SADI references.. PRIMARY REFERENCE - PLEASE CITE THIS MANUSCRIPT: Wilkinson MD, Vandervalk B, McCarthy L.. J Biomed Semantics.. 2011 Oct 24;2(1):8.. doi: 10.. 1186/2041-1480-2-8.. (.. jbiomedsem.. com/content/2/1/8.. Vandervalk B, McCarthy EL, Wilkinson M,.. SHARE the Semantic Web - This Time it s Personal!.. , proceedings of OWLED - OWL Experiences and Directions 2010 (.. webont.. org/owled/2010/papers/owled2010_submission_22.. pdf.. Wilkinson M, McCarthy L, Vandervalk B, Kawas E, Withers D, Samadian S.. (2010):.. SADI, SHARE, and the in silico scientific method.. BMC Bioinformatics 11(suppl 12):S7.. biomedcentral.. com/1471-2105/11/S12/S7.. Wilkinson MD, Vandervalk B and  ...   plugin SVN repository.. tutorial.. Taverna plugin SVN repository.. SADI registry.. Register or validate SADI services or see services that others have registered.. SADISeS.. a semi-automated SADI service generator for Perl.. SADI on myExperiment.. A group for SADI workflows on myExperiment.. SADI on Twitter.. SADI on Facebook.. YourKit Java Profiler.. YourKit is kindly supporting open source projects with its full-featured Java Profiler.. YourKit, LLC is the creator of innovative and intelligent tools for profiling Java and.. NET applications.. Take a look at YourKit s leading software products:.. YourKit ASP.. NET Profiler..

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  • Title: Web Publishing of Scientific Data and Services Courses
    Descriptive info: Web Publishing of Scientific Data and Services.. Training Courses.. Training Course 1 - Fredericton (NB), May 19-20th, 2011.. Training Course 2 - Vancouver (BC), October 22nd-23rd, 2011.. This series of training courses is mandated to.. tra.. in service providers in.. the use of modern semantic approaches to publishing informatics resources on the Web using the semantic web services paradigm.. Semantic Web Services have rich descriptions of functional requirements.. that facilitate service interoperability and make  ...   both theory and practical training in the semantic technologies that underpin the development of semantic web services.. The NEP-59 CBRASS: Canadian Bioinformatics as Semantic Services project is funded by CANARIE.. SADI – Semantic Automated Discovery and Integration.. http://sadiframework.. org.. – is a set of standards-compliant Semantic Web Service design patterns that combines simple, stateless, GET/POST-based Web Services with standards from the W3C Semantic Web initiative.. Copyright 2011.. Designed by Silvane Paixao with.. Free CSS Templates..

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  • Title: SADI » Blog Archive » Personalized Medicine from a SADI perspective
    Descriptive info: Post a comment.. Name (required).. Email address (will not be published) (required).. Web address.. By submitting a comment here you grant us a perpetual license to reproduce your words and name/web site in attribution.. Inappropriate comments will be removed at our discretion..

    Original link path: /content/2013/04/05/personalized-medicine-from-a-sadi-perspective/
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  • Title: SADI » Health
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  • Title: SADI » health lens
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  • Title: SADI » personalized medicine
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  • Archived pages: 121