Scio12 sem web_final

The Semantic Web

Science OnlineKristi Holmes & Antony Williams

January 20, 2012

We humans have always applied tools to our work to make things

work better…

Simple Machines

Semantic Web Value Proposition

• At its heart, the Semantic Web is really about extending standard Web technologies to better deal with data on the Web.

• Its fundamental approach is to create a uniform data model and a simple grammar that are realized through a Web language known as the RDF standard which provide a means to give Web addresses to data elements.

George Thomas and Jim Hendler, http://www.data.gov/communities/node/116/blogs/142

Semantic Web Value Proposition

• Resources associated with subjects, predicates (properties and objects & all get HTTP dereferenceable URI's, with different serialized representations to suit machine (apps) and human (browser) user preferences.

• By normalizing the way we access, process, persist, and visualize data across domains, we simplify mashups and maintenance and unleash more innovation powered by democratized data.

George Thomas and Jim Hendler, http://www.data.gov/communities/node/116/blogs/142

Using languages designed for data

RDF | OWL | XML

Semantic web: describes methods and technologies to allow machines to understand the meaning or "semantics” of information on the web. -- W3C director Sir Tim Berners-Lee

Ontology: a formal representation of the knowledge by a set of concepts within a domain and the relationships between those concepts.-- Wikipedia

The semantic advantage

Data modeled as bidirectional relationships

All data has standard formatEv

Data are structured as “triples” as subject-predicate-object and information is stored using the Resource Description Framework (RDF) .

Concepts and their relationships use a shared ontology to facilitate the harvesting of data from multiple sources.

Jane Smith

is member of

author of

has affiliations with

Dept. of Genetics

College of Medicine

Journal article

Book chapter

Genetics Institute

Subject Predicate Object

Storing data: People as an example

Detailed Data Relationships

David Nelson

Mike Conlon

Biomedical Informatics

Gene Anderson

Clinical Translational Science Institute (CTSI)

Ed Tech Magazine

Development of an Observational Instrument to Measure Mother-Infant Separation Post Birth

has research areais research area of

featured in

has position in

features

organization with position for

has authorauthor of

organization with position for

has position in

author of

has author

Connections among scientists illustrated

Current and accurate data revealed

Inverse relationships are created

SemWeb Elevator Pitch by David Wood

http://www.youtube.com/watch?v=VzguipSLUYc

The 5 Stars of Linked Open Data

★★★★★★★★★★★★★★★

http://lab.linkeddata.deri.ie/2010/star-scheme-by-example/

AVAILABILITY & VALUE

Datasets published in Linked Data form (2011)http://richard.cyganiak.de/2007/10/lod/

Ok! Now let’s dig into a few good examples of how we can put

these things to work

Linking government data

http://www.data.gov/

Linking government data

http://logd.tw.rpi.edu/

Civil War Data

http://www.civilwardata150.net/

OpenPHACTS

Open PHACTS Project• Develop a set of robust standards…• Implement the standards in a semantic integration hub• Deliver services to support drug discovery programs in

pharma and public domain• 22 partners, 8 pharmaceutical companies, 3 biotechs• 36 months project

Guiding principle is open access, open usage, open source- Key to standards adoption -

http://www.openphacts.org/

Complex to navigate…

What’s the structure?

Are they in our file?

What’s similar?

What’s the target?Pharmacology

Known Pathways?

Working On Now?Connections to

disease?

Expressed in right cell type?

Competitors?

http://vivoweb.org/

http://vivosearch.org/ http://vivosearchlight.org/ http://vivo.cns.iu.edu/gallery.html

Are you using Linked Data?

What are your hopes for this collection of technologies?

AcknowledgementsFunding:• Royal Society of Chemistry• Innovative Medicines Initiative

Questions:• williamsa@rsc.org• Twitter: @ChemConnector• http://www.openphacts.org/• http://www.chemspider.com• http://www.chemconnector.com

Thank you!

Funding:• VIVO, NIH award U24 RR029822• Washington University Institute

of Clinical and Translational Sciences, NIH award UL1 RR024992

Questions:• holmeskr@wustl.edu • Twitter: @kristiholmes• http://vivo.wustl.edu/display/n4754

CreditsSites:• http://www.youtube.com/watch?v=VzguipSLUYc• http://lab.linkeddata.deri.ie/2010/star-scheme-by-example/• http://richard.cyganiak.de/2007/10/lod/• http://www.deri.ie/about/press/coverage/details/?uid=194&ref=214• http://logd.tw.rpi.edu/• http://www.data.gov/• http://www.civilwardata150.net/• http://www.data.gov/communities/node/116/blogs/142• http://vivosearch.org/ • http://vivosearchlight.org/• http://vivo.cns.iu.edu/gallery.html

Images: • http://cardillowiki.pbworks.com/f/SimpleMachinesImages.jpg • http://www.promo-wholesale.com/Upfiles/Prod_k/Classic-Corkscrew_20090741553.jpg• http://www.whitegadget.com/attachments/pc-wallpapers/68644d1313647290-macbook-

air-macbook-air-wallpapers.jpg

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