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OpenTox - the creation of a Semantic Web for Toxicology
Published on Sep 06, 20117007 Views
A new paradigm of 21st century human-oriented safety testing approaches is now emerging based on a combination of in silico and in vitro approaches. The new predictive test systems developed from this
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Chapter list
OpenTox: the creation of a Semantic Web for Toxicology00:00
Introduction00:31
Our Predictive Toxicology Challenge & Use Case 1.001:54
Challenges to Integrated Resources & Applications we had to address03:55
Augmented Reality04:49
Processing Packaging Information05:06
Our "TambotiTree" Use case 3.006:05
Ontology and Data – Interoperability06:55
Interacting Components create Solutions07:31
Value is in Linking08:12
Design Influences08:46
Complexity Context09:15
Solution created by Linked Open Data, Web Applications and Crowdsourcing10:26
Knowledge-Oriented Framework11:05
Compelling Needs of Users (1)11:37
Compelling Needs of Users (2)11:49
OpenTox is an Integrating Framework12:28
OpenToxcommitted to creating a Semantic Web for Predictive Toxicology13:07
Overview of OpenTox Application Programming Interfaces13:33
The OpenTox Framework (reported 2010)14:23
What you can do with it ... (1)14:35
What you can do with it ... (2)15:19
What you can do with it ... (3)15:25
Linked resources: Compound, Algorithm, Model, Dataset, Features (1)15:40
Linked resources: Compound, Algorithm, Model, Dataset, Features (2)16:12
Semantic Reflections16:14
Need for communications in the community overcoming different languages and vocabularies16:57
Collaborative Ontology Development: Collaborative Protege Server17:01
ToxML: conversion in OWL ontology17:33
Toxicological Endpoint Ontology Development17:46
Toxicological Ontology: graphical representation17:50
OpenTox Organ Ontology18:17
OpenToxipedia18:40
A Toxicology Ontology Roadmap19:06
Need for Applications for REACH19:34
REACH and (Q)SAR bottlenecks19:37
REACH and data bottlenecks20:26
(Q)SARs & REACH requirements20:45
ToxCreate - (Q)SAR Model Building application21:19
ToxCreate - (Q)SAR Model Results23:02
OpenTox addresses Validation Principles by...23:24
Validation within OpenTox24:43
ToxCreate - linked to Validation Service25:06
(Q)SARs - reporting in OpenTox25:35
(Q)SARs - QMRF reporting in OpenTox26:17
QPRF Reporting (Qedit)27:22
Metabolites (1)27:51
SMARTCyp Service for Predicting Metabolites29:21
SmartCYP Prediction of Testosterone Metabolites29:58
Metabolites (2)30:38
Bioclipse Visualisation Workbench (1)30:45
Bioclipse Visualisation Workbench (2)31:41
Bioclipse Visualisation Workbench (3)31:43
Chemical Space Visualisation (Ches-Mapper) (1)36:08
Chemical Space Visualisation (Ches-Mapper) (2)36:38
Forming chemical feature-based categories36:46
Read-Across Application (1)36:51
Read-Across Application (2)37:58
Read-Across Application (3)38:02
Read-Across Application (4)38:03
Controlling Access to Confidential Information38:04
Authentication38:46
Authorisation39:11
Policies39:22
OpenTox - Leadscope Integration39:41
Analysis of Adverse Events Based on Pharmacological Activity40:00
Example: Cardiac Adverse Events40:12
OpenTox Workshop with 90 Participants in Rhodes40:22
OpenTox InterAction Meeting 201140:34
Emerging drug discovery collaboration landscape40:44
Creation of VO from Collaboration Pool42:08
SYNERGY Collaboration Services42:20
Neglected Diseases - Malaria42:41
SAM VO targeting Plasmodium Kinases43:27
Collaborative Research Framework Integration44:35
Event Driven Collaboration Architecture45:05
Processing Complex Events Stream46:13
Event Driven Weight of Evidence (1)46:48
Event Driven Weight of Evidence (2)47:12
Synergy Drug Design Collaboration Pilot47:40
The OpenToxLink Virtual Organisation48:53
The TCAMS MalariaBox49:41
Human Adverse Events Data50:20
Combining Predictions and Experimental Data50:36
Compound Prioritization Results50:51
Example compounds51:09
The Building Blocks of SEURAT-1 (1)51:24
The Building Blocks of SEURAT-1 (2)51:57
Building block 1: Scr&Tox51:59
Building block 2: HeMiBio52:05
Building block 3: DETECTIVE52:13
Building block 4: COSMOS52:20
Building block 5: NOTOX52:25
Building block 6: ToxBank52:34