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Open Science at Genome Scale Workshop: Key Points and Future Trends

Explore the transformative impact of open science at genome scale, focusing on data challenges, cloud computing, predictive network models, and participatory medicine. Learn about the latest genetic research breakthroughs and societal implications.

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Open Science at Genome Scale Workshop: Key Points and Future Trends

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  1. Open Science at Genome Scale Dr Liz Lyon, Director, UKOLN, University of Bath, UK Associate Director, UK Digital Curation Centre Survive or Thrive Workshop, Manchester, June 2010 . UKOLN is supported by: This work is licensed under a Creative Commons LicenceAttribution-ShareAlike 2.0

  2. http://www.ukoln.ac.uk/ukoln/staff/e.j.lyon/publications.html#november-2009http://www.ukoln.ac.uk/ukoln/staff/e.j.lyon/publications.html#november-2009 • Open Science at Web-Scale • Scale, Complexity, Predictive Potential • Continuum of Openness • Citizen Science • Credentials, Incentives, Rewards • Institutional Readiness & Response • Data Informatics Capacity & Capability • Consultation: • Write-To-Reply • Keynote Presentations: • eResearch Australasia Nov 2009 • CNI, Baltimore April 2010 • http://www.ukoln.ac.uk/ukoln/staff/e.j.lyon/presentations.html

  3. $1000 genome in <15 minutes ....by 2013? ...Next next generation technology race to market

  4. ...data deluge challenges.... • Large-scale data storage that is: • Cost-effective (rent on-demand) • Secure (privacy and IPR) • Robust and resilient • Low entry barrier / ease-of-use • Has data-handling / transfer / analysis capability • Move sequencing out of genome centres • “....analyse an entire human genome in a single day sitting with a laptop at your local Starbucks.” ...cloud services?

  5. Clients in the cloud

  6. The “new” genome informatics ecosystem The case for cloud computing in genome informatics. Lincoln D Stein, May 2010

  7. “Data sets are becoming the new instruments of science”

  8. Post-genome decade Human genomes: >24 published & almost 200 unpublished

  9. “P4 medicine : Predictive, Personalised, Preventive, Participatory.”Leroy Hood – Institute for Systems Biology ...“medicine is going to become an information science”... Image from Scientific American

  10. P4 medicine • Each patient’s genome sequenced • Your genome is basis of your medical record • New method to anonymise medical records for genomics research at Vanderbilt Univ (April ‘10) • New predictive models of health and disease • Personalised treatments focus on preventative therapies Genome scale network biology Genomic data as a commodity

  11. They have shared their data….

  12. Share my data?

  13. Sage Bionetworks : Integrative genomics Open data in the Sage Commons repository Human and mouse: clinical and genetics data Develop predictive models of disease: liver / breast / colon cancer, diabetes, obesity Crowd-sourced effort : global scope Stephen Friend

  14. Participatory medicine : Empowering the patient... Sage Congress San Francisco April 2010

  15. Calls for action, new metrics

  16. How to cite large-scale predictive network models? • Incentivise: get credit • Attribution granularity • Multiple data sources & standards • Linked data approach • Workflow integration • Curate the data......

  17. Human Genome printed http://www.flickr.com/photos/johnjobby/2252981353/sizes/l/ Discuss.... • Scaleabledata infrastructure? • Personal genomics - share your data? • Transform 21stC medicine / bioscience? • Credit & attribution for data and models?

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