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Open Access
Viewpoint of New Journal
Laurie Goodman, PhD
Editor-in-Chief, GigaScience
Laurie@gigasciencejournal.com
ORCID ...
Open Access
View 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 scienti...
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 t...
What we’re doing at GigaScience
1. Requiring all data supporting work to be Freely available in a
publically available rep...
Citable
Links to ALL
associated
information To Come:
Grant information
and link
NOTE:
This data set is being
released PRIO...
What we’re doing at GigaScience
Requiring all software and work to be Freely available in a
publically available repositor...
Soapdenovo2 Galaxy workflow
But wait- there’s more…
Going Beyond Access and Reproducibility
Targets:
Peer-Review
“Embargoes”
If we are in the business...
What we’re doing at GigaScience
Peer Review
• Reviews are signed (Other Journals are doing this)
– Currently Opt-Out. Plan...
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?tit...
What we’re doing at GigaScience
“Embargoes” and “Confidentiality”
• Leave decisions of when to share to the researcher
but...
New & more transparent peer-
review: pre-prints
1. http://arxiv.org/abs/1305.6760
2. http://www.nature.com/news/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....
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 t...
Scientific Publication as part of a
Continuum of Scientific Communication
Scientific Research
Conferences
PreprintsPress I...
Thanks to:
editorial@gigasciencejournal.com
database@gigasciencejournal.com
@gigascience
facebook.com/GigaScience
blogs.op...
Laurie Goodman at #CSE2014: Open Access - Viewpoint of New Journal
Laurie Goodman at #CSE2014: Open Access - Viewpoint of New Journal
Laurie Goodman at #CSE2014: Open Access - Viewpoint of New Journal
Laurie Goodman at #CSE2014: Open Access - Viewpoint of New Journal
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Laurie Goodman at #CSE2014: Open Access - Viewpoint of New Journal

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GigaScience EiC Laurie Goodman's talk at the Council of Science Editors Annual Meeting on "Open Access - Viewpoint of New Journal". 4th May 2014

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Laurie Goodman at #CSE2014: Open Access - Viewpoint of New Journal

  1. 1. Open Access Viewpoint of New Journal Laurie Goodman, PhD Editor-in-Chief, GigaScience Laurie@gigasciencejournal.com ORCID ID: 0000-0001-9724-5976
  2. 2. Open Access View from the Just-Launched It is Expected The End
  3. 3. 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
  4. 4. And it would be nice if established journals did this too… New Journals
  5. 5. 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
  6. 6. What we’re doing at GigaScience 1. 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
  7. 7. Citable Links to ALL associated information To Come: Grant information and link NOTE: This data set is being released PRIOR to the publication of the analysis paper With downloadable citation functionality http://gigadb.org/
  8. 8. 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
  9. 9. Soapdenovo2 Galaxy workflow
  10. 10. But wait- there’s more… Going Beyond Access and Reproducibility Targets: Peer-Review “Embargoes” If we are in the business of Communicating Then we should be PROMOTING COMMUNICATION ALL THE TIME
  11. 11. What we’re doing at GigaScience Peer 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.
  12. 12. 8 referees downloaded & tested data, then signed reports Reward open & transparent review
  13. 13. Post publication: bloggers pull apart code/reviews in blogs + wiki: SOAPdenov2 wiki: http://homolog.us/wiki1/index.php?title=SOAPdenovo2 Homologus blogs: http://www.homolog.us/blogs/category/soapdenovo/ Reward open & transparent review
  14. 14. 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
  15. 15. New & more transparent peer- review: pre-prints 1. http://arxiv.org/abs/1305.6760 2. http://www.nature.com/news/preprints-come-to-life-1.14140 Preprints
  16. 16. New & more transparent peer- review: pre-prints PrePrints
  17. 17. 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
  18. 18. Real-time open-review = paper in arXiv + blogged reviews Reward open & transparent review Real-Time Peer Review
  19. 19. Current Scientific Communication Research (shhhhh!) Okay- talk at conferences… --maybe preprints (but ASK) Don’t talk to the press! -Publication- INFORMATION!!! BIG PRESS RELEASE WE FOUND THE CURE!!!! Punctuated Science Research (shhhhh!) Okay- talk at conferences… --maybe preprints (but ASK) Don’t talk to the press!
  20. 20. Scientific Publication as part of a Continuum of Scientific Communication Scientific Research Conferences PreprintsPress Interviews Public Discourse Twitter Interactive web tools Collaboration Shouting from the rooftops!!! Blogs Publication Lets Promote Real-Time Science Sharing Data Sharing Tools Indication that a stage of research has been formally vetted and is available within easily accessible and condensed format Education
  21. 21. Thanks to: editorial@gigasciencejournal.com database@gigasciencejournal.com @gigascience facebook.com/GigaScience blogs.openaccesscentral.com/blogs/gigablog/ Contact us: Scott Edmunds, Executive Editor Nicole Nogoy, Commissioning Editor Peter Li, Lead Data Manager Chris Hunter, Lead BioCurator Rob Davidson, Data Scientist Xiao (Jesse) Si Zhe, Database Developer Amye Kenall, Journal Development Manager Follow us: www.gigasciencejournal.com www.gigadb.org

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