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[ontolog-forum] REMINDER: NCBO Webinar - Amit Sheth, Jan 20

To: "[ontolog-forum]" <ontolog-forum@xxxxxxxxxxxxxxxx>, ontogenesis@xxxxxxxxxxxxxxxx
From: Trish Whetzel <plwhetzel@xxxxxxxxx>
Date: Tue, 19 Jan 2010 20:11:44 -0800
Message-id: <139835961001192011t3180c0f1xdbd791a7e7e56546@xxxxxxxxxxxxxx>
The next NCBO Webinar will be held TOMORROW Wednesday, January 20, at 10am PT. Please note there will not be a VOIP option, and attendees must call into the teleconference.

Below is information on how to join the online meeting via WebEx and accompanying teleconference. The Webinar will be presented by Amit Sheth from the Kno.e.sis Center at Wright State University. The title of the presentation is "Semantics and Services Enabled Problem Solving Environment for Trypanosoma cruzi".

For a schedule of 2010 presentations or for more information about the NCBO Seminar Series, see:http://www.bioontology.org/seminar-series.

Title: Semantics and Services Enabled Problem Solving Environment for Trypanosoma cruzi

Abstract: The Trypanosoma Cruzi Semantic Problem Solving Environment (SPSE) is a collaborative bioinformatics research project involving researchers at the Kno.e.sis Center, Wright State University, the Tarleton Research Group at CTEGD, University of Georgia, and the National Center for Biomedical Ontologies (NCBO) at Stanford University. The primary objective of the project is to create an ontology-driven integrated environment to facilitate identification of vaccine, diagnostic, and chemotherapeutic targets in the human pathogen T.cruzi. T.cruzi is a protozoan parasite that causes American trypanosomiasis or Chagas disease, which is the leading cause of heart disease and sudden death in middle-aged adults in Latin America.. Approximately 18 million people in Latin America are infected with this parasite.

This presentation will cover the following subset of activities being carried out in the project:
1.    Creation of a Parasite Knowledge Repository (PKR):  The PKR aims to support complex biological queries related to T.cruzi vaccination or gene knockout targets over a variety of datasets including experiment data, structured data from external databases, and biomedical literature. The PKR is supported by two ontologies namely, (1) the Parasite Experiment ontology (PEO) that models gene knockout, strain creation, proteomics, and microarray experiment details, and (2) the Parasite Lifecycle ontology (PLO) to model the life cycle stages of T.cruzi, Trypanosoma Brucei, and Leishmania major. In addition, collaborations have been initiated with the Welcome Trust Sanger Institute (UK) and Oswaldo Cruz Institute (Fiocruz, Brazil) to model the lifecycle stages of Plasmodium, Schistosoma mansoni, and other kinetoplastids that have high significance to the parasite research community. The PKR is being populated with experiment datasets generated by our biology collaborators at the Tarleton Research Group (TRG) covering gene knockout, strain creation, proteomics, and microarray experiments.

2.    Trykipedia: Trykipedia is a Wiki-based discussion and dissemination platform for the parasite community and includes multi-media resource pages for each entities represented in the PKR that facilitates understanding and use by the parasite research community. Trykipedia includes descriptive texts along with images as part of the resource page for each entity.

3.    A Provenance Management Framework (PKR) for scientific data: Provenance is critical information in scientific applications to verify experiment process, validate data quality and associate trust values with scientific results. A coherent integration of the disparate datasets in T.cruzi SPSE requires the analysis of the associated provenance metadata. To achieve this objective a provenance management infrastructure called T.cruzi provenance system (TPS) is being implemented that addresses the (a) capture, (b) modeling, (c) storage, and (d) querying aspects of provenance management in T.cruzi SPSE. The TPS is an implementation of a generic framework for provenance that includes the provenir upper level provenance ontology, which facilitates provenance interoperability, a set of provenance query operators implemented in a query engine over a RDF database. Similar to the PKR, the TPS uses the PEO as a domain-specific provenance ontology. The presentation will include a brief discussion of provenance query execution over TRG laboratory datasets using the provenance query operator. 

Topic: NCBO Webinar Series
Date: January 20, 2010
Time: 10:00 am, Pacific Standard Time (San Francisco, GMT-08:00)
Meeting Number: 929 613 752
Meeting Password: ncbomeeting

To join the online meeting (Now from iPhones too!)
1. Go to https://stanford.webex.com/stanford/j.php?ED=108527772&UID=0&PW=NZWIxNzA3YmUw&RT=MiM0
2. Enter your name and email address.
3. Enter the meeting password: ncbomeeting
4. Click "Join Now".
5. Follow the instructions that appear on your screen.

To view in other time zones or languages, please click the link:

To join the audio conference only
Call-in toll number (US/Canada): 1-650-429-3300
Global call-in numbers: https://stanford.webex.com/stanford/globalcallin.php?serviceType=MC&ED=108527772&tollFree=0

Access code:929 613 752

For assistance
1. Go to https://stanford.webex.com/stanford/mc
2. On the left navigation bar, click "Support".

You can contact me at:

To update this meeting to your calendar program (for example Microsoft Outlook), click this link:

WebEx will automatically setup Meeting Manager for Windows the first time you join a meeting. To save time, you can setup prior to the meeting by clicking this link:

The playback of UCF (Universal Communications Format) rich media files requires appropriate players. To view this type of rich media files in the meeting, please check whether you have the players installed on your computer by going tohttps://stanford.webex.com/stanford/systemdiagnosis.php


IMPORTANT NOTICE: This WebEx service includes a feature that allows audio and any documents and other materials exchanged or viewed during the session to be recorded. By joining this session, you automatically consent to such recordings. If you do not consent to the recording, do not join the session.

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