Online Ontology Visualisation

jOWL 1.0: Faster, Better, Smarter

2009-02-11T01:49:00.001-08:00

I am very happy to be able to announce the release of jOWL version 1.0. Over the last months I have been making some significant changes to the underlying engine, enough to warrant a major version change. Faster: Modification of Internal Indices I performed some speed tests on the internal indices jOWL maintains, evaluating the use of native javascript arrays versus associative arrays. It...

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Experimental TouchGraph Visualization

2009-01-07T02:57:00.000-08:00

I had a little fun trying to implement a TouchGraph like, but javascript-based, visualization of OWL data. To make it even more challenging (what fun would it be otherwise :)), I decided not to use Canvas or SVG elements nor flash, which are usually used to draw/embed more advanced graphics in HTML pages. I wanted rely on pure DOM-HTML manipulations. It's very experimental, but I'm quite happy...

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Hyperbolic Tree Visualization

2008-12-22T05:51:00.000-08:00

Ever since I first read about the Javascript Information Visualization (JIT) toolkit, a javascript library that renders hyperbolic tree's and other visualizations directly inside HTML (canvas element), I've wanted to try and integrate that functionality with some jOWL reasoning. I finally found some time to do that. Turns out integrating jOWL data with the JIT Hyperbolic tree visualization is a...

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HTML Templating and OWL data visualisation

2008-10-15T00:30:00.000-07:00

One of the challenges of building a dynamic HTML page that works with OWL-DL data has been how to visualize OWL data without knowing in advance what the data will be about. For any given owl:Class you do not know in advance which properties will be defined, whether it has children, or whether it will have a description (rdfs:comment) or not, or if any terms (rdfs:label) are assigned to it in any...

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Ubiquity, OWL-DL file accessibility and jOWL

2008-09-24T02:09:00.001-07:00

If you are like me, and often browse to web in search of OWL-DL ontologies, then you have probably wished that there was an easier way to look at these files than just observing the raw OWL syntax. I'm proud to announce a Ubiquity plugin that allows you to browse any OWL-DL file on the web with jOWL, the semantic javascript library I am developing, no matter where it is hosted. I had been...

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Cell Cycle Ontology hosted at OntologyOnline.org

2008-08-20T02:44:00.000-07:00

I'm proud to say that OntologyOnline now hosts the Cell Cycle Ontology. The Cell Cycle Ontology is a wonderfully rich ontology (59.000 entries), focused around cell cycle proteins, genes and interactions. A great resource if you are dealing with biochemistry, biomedicines or any other related field. Due to it's sheer size it has been problematic to get a good look at this ontology in the past,...

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jOWL status update

2008-07-14T12:02:00.000-07:00

I packaged the latest development version of jOWL into a 0.5 release, available at Google Code. jOWL is an AJAX/javascript extension to jQuery that I am developing. The jOWL library parses and reasons with OWL-DL documents. Supported browsers for this release are Internet Explorer 7 and Firefox 2 & 3. This release is accompanied by several new and impressive demo's (in my humble opinion). These...

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TreeView for jOWL

2008-05-13T13:11:00.000-07:00

There is an update to the jOWL javascript library. Version 0.2 contains: A TreeView component (see jOWL page for a demo) in jOWL_UI.Numerous code improvements.Can be downloaded at the google project page for jOWL. jOWL is a jQuery dependent javascript library that loads and reasons over OWL documents. See also the original Blog post on jOWL.

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Server-side storage of OWL syntax.

2008-05-06T12:26:00.000-07:00

One concern I have with jOWL, a javascript library I am maintaining that parses and reasons with OWL-RDFS documents, is it's scalability. Scalability is, as we all know, of vital importance in a web setting. A potential drawback of the current jOWL javascript approach is that user is required to download the entire ontology before being able to do anything with it. This might be fine and...

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Semantics in the wild: new jOWL wine Demo

2008-03-06T10:22:00.001-08:00

I've prepared a more ambitious jOWL demo that shows off some of the reasoning capability. For the unacquainted, jOWL is a 'semantic' javascript library, under development by OntologyOnline.org, with the intention to make OWL-RDFS files (see also the previous article on OWL) a little more accessible, and thereby bring web3.0 technology another step closer to the user. The thing about the demo...

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jOWL, a javascript library for traversing OWL-RDFS documents

2008-01-24T10:08:00.000-08:00

I have started working on jOWL, a jQuery plugin for traversing OWL-RDFS documents. The ambitious intention is to deliver a script that smoothes out cross-browser issues between Firefox and Internet explorer when dealing with OWL syntax and at the same time greatly simplifies traversing OWL-RDFS documents. I'm using a mix of Xpath expressions and jQuery functionality to do so. My main...

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Semantic Annotation with RDFa: a simple experiment

2008-01-03T12:21:00.000-08:00

This article will demonstrate an application for semantic annotation with RDFa. This is more or less a follow-up to our previous article 'Embedding OWL-RDFS syntax in XHTML with RDFa' If you need additional information on RDFa and semantic annotation: see that article. Goal The idea is to enrich the markup of certain sections of a webpage with an annotation, in such a way that computers can...

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Embedding OWL-RDFS syntax in XHTML with RDFa

2007-11-27T11:12:00.000-08:00

Short introduction to RDFa, OWL and Microformats The OWL-language (web ontology language) is a recommendation by the W3C. OWL is a language that allows proper definition and representation of Ontologies. It is supposed to form the foundation of the next generation of the internet: the semantic web (a.k.a. web3.0). Unfortunately, even though it has been a recommendation since 2004, it has gained...

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Style and Ajax functionality update.

2007-10-20T00:28:00.000-07:00

The search and browse sections of the site have been restyled, be sure to check it out (example links: Papasula abbotti, ATP catabolic process).A new Logo has been put into place. Javascript/AJAX functionality has been upgraded.xHTML markup has been improved, the site is not completely POSH yet (which is hard to achieve for any site using AJAX), but steps have been made in the right...

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minor application update

2007-09-16T11:03:00.000-07:00

The web application has received a small update. Ontology information pages now display more details again (example: GeneOntology information page), this functionality had been broken by the code overhaul we performed this month. In addition we expanded the available namespaces with the sequence ontology, an ontology about gene sequence types and features. The sequence ontology contains 1311...

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Why we need the semantic web

2007-09-10T09:23:00.000-07:00

Two search strings with the same syntax can have dramatically different semantics. What if your looking for pages about a less popular topic which happens to share the same syntax as a highly popular yet 'totally irrelevant to you' topic? Finding what you need will take time and ingenuity. The newly introduced concept feeds (external feeds matching the concept of the given page), for example...

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Concept Feed Widget, a new level of ontology interaction.

2007-09-09T12:47:00.000-07:00

We are pretty excited about some new functionality we added to the Ontology Concept Information Pages. By selecting the appropriate tab button you can now retrieve a list of the most relevant Books, Blog entries and Digg news Items (of any) about the concept itself. For a quick example: see Domain Ontology - Ontology Directory. This gives you some amazingly focused search results with only one...

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New OntologyOnline WebApp Version

2007-09-03T11:52:00.000-07:00

A new version of the ontologyonline web application has been uploaded. This marks the completion of the first phase of a major code overhaul. The most important result is that all ontologies now aggregate in one MySQl database. The biggest change should be noted in the search results section. The search engine now mines all namespaces and the search output provides the ability to filter on both...

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Code overhaul

2007-07-16T00:13:00.000-07:00

It's been quiet for some time on the ontology online newsfront, reason is that we are performing a major overhaul of the java code. Currently, each imported ontology for which the content should be preserved as is requires it's own database schema. This imposes some strong limitations, and we are therefore recoding to centralise ontologies to one unique MySQL database schema, this is done by...

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A true semantic web application

2007-06-25T10:16:00.000-07:00

OntologyOnline.org was launched in April 2007. It offers one of the first true semantic web applications (often referenced as web 3.0) by allowing users to interact with ontologies at runtime. Ontology Online's proper search engine crawls the available ontologies for exact phrases, but also synonyms and even word fragments, the querying ability is only limited by the content itself, not by the...

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All about OWL - RDF tags.

2007-06-17T06:33:00.000-07:00

We have started adding OWL - RDF element tag descriptions and definitions to the Ontology Directory Project at Ontology Online. You might have seen that the official W3C documentation on OWL tends to be quite verbose, with the Ontology Directory Project we wish to provide a focused, comprehensive and quickly accessible description of the OWL language. The benefits of this projects are that by...

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The Ontology directory

2007-05-14T11:27:00.000-07:00

I've started putting together an ontological directory of existing third-party ontologies, controlled vocabularies , terminologies, and more. While it is still incomplete, I expect it to grow substantially in the nearby future. To browse: Ontology Directory

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Dynamically Generated Ontology Pages

2007-05-08T12:38:00.000-07:00

We are in the process of updating the website with dynamically generated ontology pages and searchbox functionality for content. For a preview (still under construction) please see: Online Ontology Browsing.

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Blog creation

2007-05-04T23:58:00.000-07:00

This blog has been created by Ontology Online. Its purpose is to discuss possibilities in online ontology visualisation (website integration) and use.

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