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

Twitter

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