Scott Edmunds "Open Publishing for the Big-Data Era"
Oct 30, 2014
from 12:10 PM to 01:30 PM
|Contact Name||Andrew Ventimiglia|
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Discussant: MacKenzie Smith
Lunch provided. Please RSVP if you plan to attend.
GigaScience is an open-access, open-data journal attempting to revolutionize
large-scale biological data dissemination, organization and re-use.
Utilizing the experience and data handling infrastructure of the BGI,
the worlds largest genomics organization, GigaScience links standard
manuscript publication with an integrated database that hosts all
associated data and provides data analysis tools and computing
resources. In addition, open-source platforms such as the popular Galaxy
workflow management system are used by GigaScience to make publishing
more transparent and open by making all of the supporting workflows and
methods available, thereby promoting reproducibility for which the
authors are credited.
The GigaScience platform has already been involved in releasing data during the deadly 2011 German E. coli outbreak which aided a global crowdsourcing effort that led to groups around the world, and even bloggers outside of the usual academic environment, to contribute analyses to an open-source GitHub based repository. Many still unpublished genomes have been released to the global community, and workflows and software from a number of scientific papers have been archived and shared in as open, reproducible, transparent and usable form as possible.
With data citation producing evidence of its use in the wider research community, GigaScience hopes to revolutionize the publication model with the aim of executable publications, where data analyses can be reproduced and built upon by users without a coding background or heavy computational infrastructure in a more democratized manner.
Scott Edmunds is a biochemist and geneticist. He was senior scientific editor for the BMC Genomics and Bioinformatics journals before moving in 2010 to set up the GigaScience journal, database and data analysis platform for the BGI in China. Please visit his website at: http://blogs.biomedcentral.com/gigablog/
This event is co-sponsored by UC Davis University Library, the Data Science Initiative, and microBEnet.
After you RSVP, you will be emailed with the paper to be discussed.