Network Verification Challenge

A Reputation-Based Crowd-Sourced Peer Review Platform for Network Biology

William Hayes, PhD, Selventa Anselmo DiFabio, ADS

Network Verification Challenge

The sbv IMPROVER Network Verification Challenge (NVC) aims to verify and enhance existing biological network models. The NVC is expected to increase the networks' value and promote their use in research applications such as drug discovery, personalized medicine and toxicological risk assessment. !!!Sponsored by: Philip Morris International Conceived by: Manuel Peitsch,PhD & Julia Hoeng, PhD

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Network Verification Challenge in a nutshell

www.sbvimprover.com

Who are we?

William Hayes, PhD CTO, Selventa, A Systems Diagnostics Company

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Anselmo Di Fabio CTO, ADS LLC, A Web Agency

Technical Objective• Deliver a reputation-based collaborative

network curation site for the NVC

• Attractive

• Easy to use

• Responsive

• Engaging

Challenges• Community Participation

• Reputation System

• Visualization

• Post-Event review

• BEL (Biological Expression Language)

• User expertise

BEL STATEMENTS

Term  Expression Rela0onship Term  Expression

a(CHEBI:corticosteroid) -| bp(NCI:”Tissue Damage”)

The abundance of molecules designated by the name

“corticosteroid” in the CHEBI namespace.

The biological process designated by the name “Tissue Damage” in

the NCI namespace.

Subject Predicate Object

decreases

ASSEMBLE FACTS AS COMPUTABLE MODELS

BEL statements…

…assemble into models… …for use in

applications

The Networks

sbv IMPROVER supplied 50 networks focused on COPD with supporting evidence for the NVC

Reputation-based Crowdsourcing

• Features o Reputation o Badges o Leaderboards o Activity tracking o Voting

▪ Form based

▪ Approval

▪ Penalties

• Examples o StackOverflow o Researchgate.net o Slashdot.org o Amazon o Ebay

Activity Stream (Community)

• Comprehensive listing of site activity

• Shows drill-down of voting activity

• Critical to participation

Technology Stack• JSON

• Angularjs

• D3.js

• MongoDB

• C# MVC Framework and Web API

• BEL

Sales and Marketing

• Required for success in any project

• Even free has a cost to customer

Acknowledgements

• sbv IMPROVER Team (PMI)

o Project Lead: Julia Hoeng, PhD

o Project Sponsor: Manuel Peitsch, PhD

• Selventa NVC Project Team

• ADS Dev Team

Q & A

Resources• SBVImprover - http://sbvimprover.com

• NVC - http://bionet.sbvimprover.com

• BEL - http://openbel.org

• D3 - http://d3js.org

• AngularJS - http://angularjs.org

• MongoDB - http://mongodb.org

• Book: Building Web Reputation Systems - http://shop.oreilly.com/product/9780596159801.do