News

New SADI plugin to the IO Informatics Sentient Knowledge Explorer

Hi all!

Adrian, Luke, and I have just completed the most up-to-date SADI plugin to the Sentient Knowledge Explorer.  This update was written to be released together with the >26,000 new SADI services that expose Michel Dumontier’s OpenLifeData (http://openlifedata.org).

The plugin is here:http://sadiframework.org/downloads/SADI_KEPlugin_0.4.0.dll

Installation instructions are in the wiki: https://code.google.com/p/sadi/wiki/KnowledgeExplorerPlugin

Sample data to get you started with discovery using the Plugin is available here:  http://biordf.org/sampledata_hgnc.rdf

Please let us know if you have any problems or suggestions!  info@sadiframework.org

SADI plugin to Sentient Knowledge Explorer updated

A new version of the SADI plugin to IO Informatics Sentient Knowledge Explorer is available at http://sadiframework.org/downloads/SADI-KEPlugin-0.2.0.zip. The plugin has been updated to work with the most recent version of KE and to run more smoothly with the increasing number of SADI services in the public registry. Installation instructions are in the wiki: KnowledgeExplorerPlugin.

Personalized Medicine from a SADI perspective

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”.

International Innovation article on SADI/SHARE

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).

The formal SADI Spec.

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!

OWL Domain Models as Abstract Workflows

The publication from the Wilkinson lab:  OWL Domain Models as Abstract Workflows  describes how we use SADI and SHARE to generate a workflow based on a biological domain model.  The upshot is that, by creating a biological model of a piece of data of interest, SHARE can cobble-together a series of SADI services that will find/generate data that matches that model.

Example Code: SADI + SWObjects (from Eric Prud’hommeaux)

Eric and Luke have been working on making SADI and SWObjects work nicely together.  Here is some sample code from Eric’s test suite that shows how to call SADI from SWObjects:

Tim Lebo’s work on provenance info with SADI

IPAWS

Tim Lebo talks about how he uses SADI in DATAFAQs (..among other things ;-) )

http://www.ustream.tv/recorded/20950609

SADI paper is out

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

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