People

Organizers

Michel Dumontier, Associate Professor of Medicine (Biomedical Informatics) @ Stanford University

• expertise: ontology, linked data, semantic web, phenotypes, bioinformatics
• projects: Bio2RDF

Andrew Su, Associate Professor @ Scripps Research Institute

• expertise: crowdsourcing, bioinformatics, genomics
• projects: Gene Wiki, BioGPS

Benjamin Good, Staff Scientist @ Scripps Research Institute

• expertise: crowdsourcing, java, semantic web, games
• projects: Gene Wiki, genegames.org

Participants

Adrien Coulet, Assistant Professor @ University of Lorraine, France & Inria

• expertise: ontology, linked data, semantic web, knowledge extraction

Anders Riutta, Software Engineer @ Gladstone Institutes

• expertise: data science, linked open data/semantic web, systems biology
• projects: WikiPathways, pathvisiojs

Alexander Pico, Associate Director of Bioinformatics @ Gladstone Institutes

• expertise: crowdsourcing, bioinformatics, network biology, protein structure
• projects: WikiPathways, BridgeDb, Cytoscape

Ben Ainscough, Graduate Student @ Mardis/Griffith Lab @ The Genome Institute at WashU

• expertise: bioinformatics, genomics, perl, python, Java, C++
• projects: cancer genomics, translational research

Chunlei Wu Associate Prof of molecular medicine@ Scripps Research Institute

• expertise: crowd-sourcing, linked data, genomics, data science, Python hacking, Web dev.
• projects: BioGPS MyGene.info

[Ivo Georgiev] (http://www.linkedin.com/in/ivogeorgiev/)

• expertise: software engineering, embedded systems, bioinformatics, knowledge engineering
• projects: neuromorphic computer vision, knowledge base for spinal cord injury and regeneration, [multiscale phenotype] (http://goo.gl/a7ld5q)

Jack Park

• expertise: collaboraboration software development, knowledge rep and reasoning, NLP, ontology, topic maps
• projects: knowledge gardens, SolrSherlock

Jeffrey Grethe, Associate Director @ Center for Research in Biological Systems, University of California San Diego

• expertise: neuroscience, bioinformatics, data science, linked data, semantic web, bioinformatics
• projects: Neuroscience Information Framework, SciCrunch, NIDDK Information Network, Monarch Initiative

Joachim Baran, Postdoctoral Research Fellow @ Stanford University

• expertise: bioinformatics, big data (and small data too), ontologies, Semantic Web, linked data

Kevin Livingston, Postdoc @ University of Colorado Computational Bioscience Program

• expertise: knowledge representation and reasoning, natural language processing, ontology, semantic web
• projects: KaBOB (Knowledge Base of Biomedicine), Biomedical NLP, ...

Maeoll Kim, Graduate Student @ Bohonak Lab/SDSU

• expertise: network admin, biology, shell scripting, Python, C/C++, Java, bioinformatics
• projects: Isolation by Resistance Desktop Port

Manuel Salvadores, Software Engineer @ NCBO/Stanford

• expertise: RDF, SPARQL, BioPortal
• projects: NCBO, BioPortal, 4store

Nikhil R Podduturi, Research Engineer @ Stanford

• expertise: ontologies, genomics, bioinformatics, GPGPU, Java, C/C++, CUDA, Python etc
• projects: ENCODE, SGD

Paul Alexander, Software Engineer, NCBO @ Stanford

• expertise: software engineering, UMLS, REST APIs, Ruby, Python, Java
• projects: NCBO BioPortal

Robin Haw, Scientific Associate and Outreach Coordinator @ Reactome, Ontario Institute for Cancer Research.

• expertise: microbiology, genetics, genomics, proteomics, data curation
• projects: [Reactome] (http://www.reactome.org)
• interests: variant-disease annotation, pathway curation and text mining

Sean Mooney, Associate Prof and Dir of bioinformatics, Buck Institute (also Berkeley, USC, and Indiana U)

• expertise: genetic variants, ontologies, bioinformatics, web development

Venkat Malladi, Data Wrangler @ Stanford

• expertise: data modeling, ontologies, genomics, bioinformatics
• projects: ENCODE

[Yen Low] (http://www.linkedin.com/pub/yen-sia-low/2/998/875), Postdoc, Stanford Biomedical Informatics

• expertise: cheminformatics, data mining, epidemiology, pharmacokinetics
• projects: Drug-drug interactions, drug epidemiology studies
• interested use cases: proteins -> drugs, drug-drug-events

[Pavel Novichkov] (https://www.researchgate.net/profile/Pavel_Novichkov), Research Scientist, Lawrence Berkeley National Laboratory

• expertise (science): comparative genomics, transcriptional regulation
• expertise (programming): Java and Java-based technologies(JSP, Java servlets, GWT); relational, document-oriented and graph databases (MySQL, MSSQL, MongoDB, Neo4j)
• projects: DOE Systems Biology Knowledgebase (KBase), [ENIGMA] (http://enigma.lbl.gov)