A Tagging System for Bioinformatics Resources

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TAGGING SYSTEM FOR BIOINFORMATICS RESOURCES A

PEDRO LOPES pedrolopes@ua.pt ITAB2010 - Corfu, Greece November 2nd, 2010


OUTLINE ‣ CHALLENGE ‣ SOLUTION ‣ STRATEGY ‣ PROTOTYPE ‣ HIGHLIGHTS ‣ FUTURE PERSPECTIVES


BIOINFORMATICS RESOURCES


BIOINFORMATICS RESOURCES


CHALLENGE


CHALLENGE ‣ ENRICH • Context & meaning

‣ ENHANCE • User experience

‣ More than sentences

‣ New user interactions

‣ More than paragraphs

‣ Rich web applications

‣ CONNECT • New relations ‣ Amongst documents ‣ Between documents and resources ‣ From documents to applications


CHALLENGE ‣ ENRICH

‣ ENHANCE

• Context & meaning

• User experience

‣ More than sentences

‣ New user interactions

‣ More than paragraphs

‣ Rich web applications

‣ CONNECT • New relations ‣ Amongst documents ‣ Between documents and resources ‣ From documents to applications

?

Improve user experience through the establishment of new connections to enrich existing bioinformatics resources


SOLUTION


SOLUTION ‣ ANNOTATION

‣ TAGGING

• Read/parse resource

• Edit annotated content

• Cross information with huge dataset

• Add HTML tags

‣ Lexicon • Identify relevant tokens

• Show contextual layer


SOLUTION ‣ ANNOTATION

‣ TAGGING

• Read/parse resource

• Edit annotated content

• Cross information with huge dataset

• Add HTML tags

‣ Lexicon

• Show contextual layer

• Identify relevant tokens

!

(LEXICON + TEXT MINING) x AUGMENTED BROWSING


STRATEGY


STRATEGY

Web Application

Annotator Web Service

Augmented Browsing Web Service

Lexicon


STRATEGY

1 Web Application

Annotator Web Service

Augmented Browsing Web Service

Lexicon


STRATEGY

1 Web Application

Annotator Web Service

2 Augmented Browsing Web Service

Lexicon


STRATEGY

1 Web Application

Annotator Web Service

3 2 Augmented Browsing Web Service

Lexicon


STRATEGY

1 Web Application

Annotator Web Service

3 4 Augmented Browsing Web Service

2 Lexicon


PROTOTYPE


HIGHLIGHTS ‣ SCALABLE • Lexicon ‣ Changed/updated any time • Service Deployment ‣ Local ‣ Remote

‣ DYNAMIC • Augmented browsing ‣ Real time ‣ XML settings file • Resources ‣ As long as it is online...

‣ AGILE • User Experience ‣ Lightweight ‣ Integrated in any web app • Augmented browsing ‣ On-the-fly modal box


FUTURE PERSPECTIVES ‣ EVALUATE • Add to existing applications • Test usability

‣ PUBLISH • Offer standalone plugin ‣ Available for any web application • Offer browser plugin ‣ Firefox + Chrome + Safari


FUTURE PERSPECTIVES ‣ EVALUATE • Add to existing applications • Test usability

‣ PUBLISH • Offer standalone plugin ‣ Available for any web application • Offer browser plugin ‣ Firefox + Chrome + Safari

ARE YOU INTERESTED?


QUESTIONS? THANK YOU!


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