Final Micro B3 / OSD Data Policy
Authored by the OSD
Data Policy Working Group with the OSD Consortium
OSD Data Policy Working Group
Dawn Field, Oxford
University, OSD, WP2 Leader
Mesude Bicak,
Oxford University, OSD Co-ordinator/Bioinformatician
Anna Klindworth,
MPI Bremen, OSD Co-ordinator
Frank Oliver
Glöckner, Jacobs University Bremen & MPI Bremen, Micro B3 Coordinator
Arianna Broggiato,
BIOGOV, ABS (WP8)
Arul Scaria,
BIOGOV, Data Policy (WP8)
Tom Dedeurwaerdere Univ Louvain WP8 Leader
Alban Ramette, AWI,
Biostatistics (WP5 & WP6)
Linda-Amaral
Zettler, Woods Hole, MicroB3 Scientific Advisory Role (ICOMM MIRADA LTER)
Petra ten Hoopen,
EBI, Metadata & Standards (WP2 & WP4)
Michelle Barbier,
CIESM, Med Co-ordinator (WP2, 4, 8 & 9)
Neil Davies, UC
Berkeley, GOs Network, WAML, Pacific Region
Jack Gilbert,
Argonne National Labs, EMP
Katie Barker,
Smithsonian Institution, GGI Bio-Archiving
Status to date
This data policy
covers the collection, dissemination, analysis and publication of OSD data.
It was developed over the past years of OSD pilot events. Within Micro
B3, WP8 is responsible for the Micro B3 data policy. The OSD policy is
based on this policy and consultation with the OSD Consortium. It was
finalized at the Micro B3 General Assembly (GA) April 2014. It remains the
responsibility of the OSD Data Policy working group to make sure the policy is
fit for purpose and all are aware of it when submitting and using data of the
OSD Consortium. If you would like to join the group please contact osd-contact@microb3.eu.We welcome input
from all OSD participants on shaping of the OSD data policy. Please send
comments to osd-contact@microb3.eu.
Background
The OSD Data Policy
was created by drawing on existing policies (See Biosharing: http://biosharing.org/policies) and current best
practice in genomics and the needs of Micro B3 and the OSD community. It
was developed and will be maintained according to the “12 steps to a data
policy” outlined in Field et al (2009) Science:
12 Step Path to a Data Policy:
Tenets of Ocean Sampling Day (The policy applies to all
in the OSD Consortium. It is a mandatory part of taking part in OSD)
The OSD data set is
generated by the members of the OSD Consortium - to be part of the Consortium
you must be formally registered and substantively contribute to the
collaboration.
The OSD dataset will be
a reference data set and should be as widely accessible and used to support
downstream research as possible.
As OSD is one event (a
one-off event) it should be easier to get all contributors (their official
sites) to release the data publicly.
All OSD data must be
standards compliant - must include metadata - this includes compliance with the
Micro B3 standard, which includes the GSC’s MIxS standard.
All
OSD genomic data must be tightly linked to environmental data - contextual
information is a top priority.
Sequence
data without deposition of accompanying metadata (minimum of lat, long, time,
depth, temp, salinity according to OSD Handbook) will not be released after the
June solstice 2014 event. The OSD Consortium will work towards release of
all data.
The OSD data policy
covers the pilot events, the main OSD event and any subsequent events.
Data must be submitted
to the public repositories (e.g. INSDC). Micro B3 will make sure
2012-2015 data sets are submitted to the ENA/MG-Portal.
All data will be
processed/stored in the Micro B3 infrastructure as it is built and the full
data set will eventually be available through this infrastructure. Data can
flow in many analysis pipelines/databases - we welcome its wider use
All samples must be
collected legally (with appropriate permits) and individual collectors are
responsible for making sure of this. Specifically ABS/MTA/DTA agreements
will be in place as required (bioarchiving at GGI requires OSD MTA, proof of
relevant ABS and metadata)
The OSD Consortium
This
data policy applies to everyone in the OSD Consortium (to date this means
everyone who has constructively contributed to OSD sampling events).
Release of the data and metadata
At the 2013 EEB
meeting of the Micro B3 project we agree on the importance of the OSD data set
as a whole (the sum of participating sites) and the desire to support open
sharing of the data. The EEB agreed to work towards: ”immediate release
of all OSD data as soon as sequenced and quality checked to the public”.
In this, sense “public” means beyond Micro B3 and OSD participants to the
public at large. To protect the rights of the consortium to publish the
first global analysis of the data, the data will be released under Ft
Lauderdale principles. This is routinely used in large
sequencing projects and promotes the use of the data by the wider community
while safeguarding the scientific contributions of the data generators.
For example, a complete Neanderthal genome was released to the public
prior to publication in 2013 under these principle (see: http://www.eva.mpg.de/neandertal/index.html).
This statement will
accompany all access to OSD sequence data.
Use of the sequence data
All
data will be made freely available. However, we ask users to observe the Ft. Lauderdale principles,
which entitles the data producers to make the first presentation and publish
the first genome-wide analysis of the data. The data can be used freely
for studies of individual genes or other individual features of these
sequences.
Collaborative Data Analysis
We
hope that the OSD reference data set will be helpful in a variety of ways and
we encourage those interested in analysis of the data to declare their
interests and formally join the OSD Data Analysis working group.
Together, we are working towards “OSD reports” that will be generated
following each event. Ideally, each report will provide a high level
overview of the event and, if multiple events are available, comparison and
contextualization with past data. Predictions about future events may
also be included. It is our vision that this type of transparent
collaboration where interested parties declare how they would like to
contribute to the data analysis, will help maximize the efforts of the community
and build the strongest possible biological interpretation of the data.
Publication
We
expect the authorship of the global analysis of the OSD data set to belong to
the OSD Consortium. Authorship will be defined on a case-by-case basis
for more specialist publications.
Evolution of this Policy
According to the
“12 steps for policy development” process, this policy may evolve according to
best practice. As agreed at the May 2013 EEB meeting of Micro B3, changes
to the policy will be done in consultation with the community.
Specifically, policy issues will be taken forward through the OSD Data
Policy Working group who is responsible for building consensus on any issues or
changes. Final authority for any changes and for upholding the policy will rest
with the leadership of Micro B3
Signed by
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