1st Network of BioThings Hackathon

Michel Dumontier edited this page Apr 24, 2014 · 17 revisions

What: 1st Network of BioThings Hackathon (#networkofbiothings)

When: April 26-27, 2014

Where: This hackathon will be held concurrently at two sites (more info below):

  • Stanford University
  • Maastricht University

Why: Despite the massive amount of biomedical literature, only a small amount is available in a form that is readily computable. The National Center for Biomedical Ontology (NCBO) is hosting the first hackathon to develop a comprehensive Network of BioThings (proteins, genes, pathways, mutations, drugs, diseases) extracted from scientific research articles and integrated with public biomedical data (see blog post http://goo.gl/i91ngK). During this hackathon, we will (1) identify motivating use cases, (2) define a shared, sustainable, multi-component infrastructure to build the NoB, and (3) implement common data representations, ontology-based programmatic interfaces, and develop cool applications. We will do this in an open, scalable, responsive manner so that it becomes a major asset for hackers and biomedical researchers worldwide.

This Hackathon will feature

  • networking and mentoring with leading researchers and experts
  • tutorials on text mining, terminology services, indexing and querying structured data.
  • prizes for most significant contributions in a number of key areas
  • $500 for best motivating use case
  • $500 for most sustainable infrastructure design
  • 2x$500 for best applications

Who: We’re looking for:

  • Hackers and Mentors
  • Biologists, Text Miners and Data Wranglers
  • Ontologists, Terminologists, and Data Linkers
  • Semantic Web novices and experts
  • Systems and Network Biologists
  • Crowdsourcing experts and functional game designers
  • Skills in Large Text/Data Indexing, Facet Search and Browse, and REST APIs
  • Domain experts to advise on motivating use cases

Come join us for 2 days of networking, designing, and coding culminating in prize-winning pitches and demos!

North American Site

Location: 101, Li Ka Shing Center, Stanford University, Stanford, California

Registration: $50 per in-person participant; free for remote participants - register here - Max 60 participants - first come first served!


Saturday April 26

8:30AM: Registration and Breakfast

9:00AM: Introductions, Problem Statement, Ideas session

10:15AM: Project Pitches and Team Formation

11:00AM: Tutorials

12:15PM: Lunch is served

6:00PM: Progress Reports

7:15PM: Transportation leaves for restaurant

7:30PM: Dinner at the Left Bank in Menlo Park

Sunday April 27

8:00AM : Breakfast is served

12:15PM: Lunch is served

4:30PM : Pitches and Demos

6:00PM : Winners announced, prizes awarded, final remarks.

Sponsor NCBO The National Center for Biomedical Ontology (NCBO) is an NIH funded center to support biomedical research through tools and resources for ontology-based analyses. The NCBO is home to BioPortal, a repository of over 350 biomedical ontologies, and provides services to annotate text with ontology terms, and ontology-based data exploration. For more information, see the website at http://www.bioontology.org

European Site

Web site: http://projects.bigcat.unimaas.nl/hackaton-biothings/

Location: Maastricht, Netherlands

Registration: http://projects.bigcat.unimaas.nl/hackaton-biothings/register/


Saturday, April 26

12:00: Registration and Brunch

12:30: Introductions, Problem Statement, Ideas session

13:15: Project Pitches and Team Formation

14:00: Tutorials

18:00: Progress Reports (broadcasting to US site)

19:00: Pizza

Sunday, April 29

16:30: Pitches and Demos

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