laurie goodman at #cse2014: open access - viewpoint of new journal
Post on 28-Jan-2015
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Open AccessViewpoint of New Journal
Laurie Goodman, PhDEditor-in-Chief, GigaScience
Laurie@gigasciencejournal.comORCID ID: 0000-0001-9724-5976
Open AccessView from the Just-Launched
It is Expected
The End
Okay- That’s actually only the Beginning
• Open Access serves as a foundation for a specific way of thinking about scientific communication and the role of journals and publishers
• It is actually a step toward complete transparency
• It is a step toward changing how we communicate science — from start to finish
And it would be nice if established journals did this too…
New Journals
New Journals as an Evolutionary Mechanism• New journals are in a unique position to try new ideas and new
ways of doing things• They MUST test new things – Even ones that seem to fly in the face of long-held (and
sometimes treasured) views• They MUST be ready to have things they try FAIL• They MUST be ready to jettison what doesn’t work– Even if that means changing midstream when a new and
better opportunity arises• They MUST be responsive –both reactive and proactive– Reactive is not evil: but it can be is if is the only activity way
of responding…• They NEED their publishers to support and PROMOTE this
What we’re doing at GigaScience1. Requiring all data supporting work to be Freely available in
a publically available repository– How we’re promoting this:• Journal-dedicated data and software repository GigaDB
that hosts ALL data types.• Have a Biocurator(s) to aid in handling Metadata• All Datasets are provided a Digital Object Identifier
(DOI) making them citable and countable (reward for making data available- GigaDB is tracked by Thompson Reuters Data Citation Index)• All Material in GigaDB is available under a CC0 Waiver• Data with a publically approved database must be
submitted there as well • Provide Direct links to all associated information
Citable
Links to ALL associated information To Come:
Grant informationand link
NOTE:This data set is being released PRIOR to the publication of the analysis paper
With downloadablecitation functionality
http://gigadb.org/
What we’re doing at GigaScience
Requiring all software and work to be Freely available in a publically available repository– How we’re promoting this:• Journal-Dedicated repository GigaDB that hosts
software so it can be downloaded.• Software and Workflows are provided a DOI making
them citable and countable (reward)• Journal-dedicated Galaxy Platform to run tools• Have a Data Manager and Data Scientist to wrap and
deploy software tools• All software created by authors must be open-source
Soapdenovo2 Galaxy workflow
But wait- there’s more…
Going Beyond Access and Reproducibility
Targets:Peer-Review
“Embargoes”
If we are in the business of CommunicatingThen we should be
PROMOTING COMMUNICATION
ALL THE TIME
What we’re doing at GigaSciencePeer Review
• Reviews are signed (Other Journals are doing this)– Currently Opt-Out. Planning to make it mandatory
• All Reviews (and all pre-publication history) are available upon publication.
8 referees downloaded & tested data, then signed reports
Reward open & transparent review
Post publication: bloggers pull apart code/reviews in blogs + wiki:
SOAPdenov2 wiki: http://homolog.us/wiki1/index.php?title=SOAPdenovo2Homologus blogs: http://www.homolog.us/blogs/category/soapdenovo/
Reward open & transparent review
What we’re doing at GigaScience
“Embargoes” and “Confidentiality”• Leave decisions of when to share to the researcher
but encourage early sharing• Actively encourage the use of Pre-Print Servers
• Take Open-Access one step further Consider EXTRA-OPEN Peer-Review
• Eliminate Press Embargoes
New & more transparent peer-review: pre-prints
1. http://arxiv.org/abs/1305.67602. http://www.nature.com/news/preprints-come-to-life-1.14140
Preprints
New & more transparent peer-review: pre-prints
PrePrints
Real-time open-review = paper in arXiv + blogged reviews
Reward open & transparent review
http://tmblr.co/ZzXdssfOMJfywww.gigasciencejournal.com/content/2/1/10
Real Time Peer Review
Real-time open-review = paper in arXiv + blogged reviews
Reward open & transparent review
Real-Time Peer Review
Current Scientific Communication
Research (shhhhh!)Okay- talk at conferences…--maybe preprints (but ASK)
Don’t talk to the press!
-Publication-INFORMATION!!!
BIG PRESS RELEASEWE FOUND THE CURE!!!!
Punctuated Science
Research (shhhhh!)Okay- talk at conferences…--maybe preprints (but ASK)
Don’t talk to the press!
Scientific Publication as part of a Continuum of Scientific Communication
Scientific Research
Conferences
PreprintsPress Interviews
Public Discourse
Interactive web tools
Collaboration
Shouting from the rooftops!!!
Blogs
Publication
Lets Promote Real-Time Science
Sharing DataSharing Tools
Indication that a stage of research has been formally vetted and is available within easily accessible and condensed format
Education
Thanks to:
editorial@gigasciencejournal.comdatabase@gigasciencejournal.com
@gigascience
facebook.com/GigaScience
blogs.openaccesscentral.com/blogs/gigablog/
Contact us:
Scott Edmunds, Executive EditorNicole Nogoy, Commissioning EditorPeter Li, Lead Data ManagerChris Hunter, Lead BioCuratorRob Davidson, Data ScientistXiao (Jesse) Si Zhe, Database DeveloperAmye Kenall, Journal Development Manager
Follow us:
www.gigasciencejournal.comwww.gigadb.org
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