Search Mailing List Archives

Limit search to: Subject & Body Subject Author
Sort by: Reverse Sort
Limit to: All This Week Last Week This Month Last Month
Select Date Range     through    

[ncbo-publictalks] REMINDER: NCBO Webinar - Amit Sheth, Jan 20

Trish Whetzel whetzel at
Tue Jan 19 17:38:16 PST 2010

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:

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
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:

Access code:929 613 752

For assistance
1. Go to
2. On the left navigation bar, click "Support".

You can contact me at:
whetzel 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 to 

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.

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <>

More information about the NCBO-PublicTalks mailing list