overcoming barriers for genomic data sharing yaac presentation may 23 2015
TRANSCRIPT
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Fiona NielsenMay 23 - 2015Young Alliance Against
Cancer
Tweet us @repositiveio
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The frustrated researcher!
How did this happen?
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The long road to resultsRaw reads
Read QC
Variant calling
Analysis-readyreads
Analysis-readyvariants
Variant Annotation Genotype
Refinement Raw Indels
Raw SVs
Raw SNPs
Mapping
External Data
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What do you do?
Sequence Read Archive
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What do you do?
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What do you do?
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Yikes
What do you do?
PubMed?
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What do you do?
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What do you do?
Ask your PI
Write application
Apply for access
Wait…Wait…Wait…Wait…
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Access requests can take months
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You are not the only one
T. A. van Schaik et alThe need to redefine genomic data sharing: a focus on data
accessibility, Applied & Translational Genomics, 2014
10.1016/j.atg.2014.09.013
Researchers spend months to find and access genomic data, and often choose to not access
data at all
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2006 2007 2008 2009 2010 2011 2012 2013 2014 2015
Genomes Sequenced
~400k genomes produced
And how do you keep up?
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And how do you keep up?
Data is uploaded to repository
Data is discovered by potential user
Data is accessed by potential user
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What IF?You could easily search and
discover data?
You could rank data by relevance?
Registering data was simple to do?
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Search would be easy
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figshare.com
Overview would be simple
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Collaboration would be easy
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My research
Through your daily work routine you gain visibility
for potential collaborators
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You would discover new resources you did not
know existed
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Making your contribution would be easy
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https://www.flickr.com/photos/blackzack00/10205948476/
It has taken a while…
DNAdigest was founded in March 2013
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Working out what to do
Making data discoverable and shareable
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Building through collaboration
DNAdigest organises hackathons/workshops 4 times a year
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We founded Repositive
To make genomic data accessible for research
Adrian Alexa CTO & Data Scientist
Fiona NielsenFounder & CEO
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A portal to search for data
Interested? Sign up for our beta at repositive.io
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To make your data visible
Interested? Sign up for our beta at repositive.io
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To collaborate
Interested? Sign up for our beta at repositive.io
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Read more at http://repositive.io and tweet us @repositiveio
Thanks for listening!
We are hiring!Data Scientist in Genomics
Software DeveloperFront End Web Developer
Communications/marketing assistant
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repositive [ re-poz-i-tiv ], noun; 1. a positive experience of accessing
genomic data repositories
Read more at http://repositive.io and tweet us @repositiveio