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Data Provider FAQ

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  • The Ocean Biogeographic Information System (OBIS)
  • Contributing Data to OBIS-SEAMAP
  • The SEAMAP Terms of Use
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    This FAQ list was started based on conversations Kelly MacLeod of SMRU had with the North Atlantic Marine Mammal Commission, material provided by Mark Costello, and discussions with the OBIS committee and SEAMAP contributors.

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    The Ocean Biogeographic Information System (OBIS)

    What is OBIS?

    OBIS was established by the Census of Marine Life program. It is an evolving consortium of organizations and people sharing a vision to make marine biogeographic data, from all over the world, freely available over the World Wide Web. It is not a project or program, and is not limited to data from CoML related projects. OBIS is not incorporated, it does not employ staff, own equipment, or apply for funding. Organizations that are involved in OBIS take on these responsibilities.

    What does OBIS provide?

    OBIS provides on an open access basis through the World Wide Web:
    • taxonomically and geographically resolved data on marine life and ocean environment;
    • interactivity with similar databases;
    • access to interactive physical oceanographic data at regional and global scales;
    • software tools for biogeographic analysis.

    Who can join OBIS?

    Any organisation, consortium, project or individual may contribute to OBIS. The data may be located in part or whole on the OBIS server at Rutgers University, or provided through an on-line connection to another database. To join OBIS contact the Chair of the OBIS International Committee in the first instance. Technical aspects of connecting to the OBIS website will then be planned with the OBIS Webmaster.

    What is the OBIS International Committee?

    OBIS is managed by an International Committee (IC) of volunteers. The IC decides OBIS policy and strategy. It actively fosters OBIS development through data sharing and exchange, making software available, and supervising the OBIS portal development. It may establish working groups, for example to deal with technical data management issues. The IC is responsible for ensuring that contributors have expertise in their field, and have taken reasonable steps to ensure the quality of their data and/or software.

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    Members of the IC are selected as individuals to represent the constituencies of OBIS, including data providers, software developers, and regions of the world. They bring their expertise, knowledge, and connections to OBIS, and it is anticipated that they would be in regular contact with people and organizations who are potential users of, and contributors to, OBIS. Members do not represent their institutions. The IC elects the OBIS Chair from its members.

    Who is on the OBIS International Committee?

    In May 2001, an International Committee for OBIS was formed:
      • Dr Geoff Boxshall F.R.S., The Natural History Museum, London, UK;
      • Dr Mark J. Costello, Executive Director, The Huntsman Marine Science Centre, St Andrews, Canada;
      • Dr Daphne G. Fautin, Curator, The University of Kansas Natural History Museum, Lawrence, USA;
      • Dr Kim Finney, Chief Information Officer, National Oceans Office, Hobart, Australia;
      • Dr Rainer Froese, FishBase-Coordinator, Institut f?r Meereskunde, Kiel, Germany;
      • Dr Dennis P. Gordon, National Institute of Water & Atmospheric Research (NIWA), Wellington, New Zealand;
      • Dr J. Frederick Grassle, Director, Institute of Marine and Coastal Sciences, Rutgers University, New Brunswick, USA;
      • Dr Yoshihisa Shirayama, Director and Professor, Seto Marine Laboratory, Shirahama, Japan.
      • Dr John Wilkins, Institute of Marine and Coastal Sciences, Rutgers University, New Brunswick, USA.
      • Ex-officio members of the IC are:
        • the OBIS Webmaster
        • Dr Phoebe Zhang
        • OBIS post-doctoral Research Fellows
        • Dr Karen Stocks
        • Dr James Wood

    What is an OBIS Contributor?

    People, organizations and projects that provide data or software to OBIS can be recognized as ?Contributors to OBIS?. A continuing contribution with new data and software tools is not involved.

    What is an OBIS Partner?

    Organizations that have established a continuing relationship with OBIS through providing data, software or other resources. Partners would also be contributors. OBIS partners include Species 2000, ITIS, FishBase, CSIRO, Rutgers University, Kansas University, NODC, ...

    What is an OBIS Sponsor?

    Organizations or individuals that have provided or are providing quantifiable resources, typically financial, to OBIS. OBIS sponsors include the Sloan Foundation, the Niarchos Foundation, NOPP, NSF, NOAA, ...

     

    Contributing Data to OBIS-SEAMAP

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    What are the minimum data fields OBIS-SEAMAP requires?

    OBIS-SEAMAP requires that all data be searchable by taxon name and by geographic coordinates.

    The minimum data requirements for a record to be returned by the search are basically the what, when and where of an observation:

    • SPECIES.  A scientific name (Genus species) is preferred, however data at higher taxonomic levels, such as genus, family or order is also allowable. If you record species codes, a look-up table is also required.
    • LOCATION.  The latitude-longitude coordinates are used. They can be in decimal degree or degree/minute/second. Positive values for negative longitude are acceptable as they are.
      Because the accuracy of the geographical position of different records may differ, information on the spatial resolution will be included in the meta-data.
    • TIME.  The date and/or time of the observation should be provided. Almost any format is acceptable.

    How about other fields?

    We appreciate whole datasets including additional attributes, in-situ data and effort data. Fields other than the required ones described above are not publicly available by default. Effort data are transformed into trackline data and shown on the map while related data recorded during efforts are hidden.
    OBIS-SEAMAP users may request additional field data. Upon your permission, we will release requested data.

    What data formats do you accept?

    Virtually any formats are acceptable unless the data are written in device-dependent binary format that needs to be decipher. Acceptable formats include:

    • Excel shreadsheet
    • comma/tab separated values (CSV text)
    • Access database (.mdb)
    • DBF
    • ESRI shapefile

    I'm interested in contributing data to OBIS-SEAMAP. But my data are a mess. Can you help me organize or clean the data?

    Yes, we are happy to assist you. We have a bunch of tools to organize and clean the data including formatting, transposing, finding points on land etc.
    Feel free to consult us.

    How do I provide data to OBIS-SEAMAP?

    Probably the easiest way for both of us is is to send the data as email attachments.
    If the data are too large to attach, we can provide a way to upload them using directly to the website.

    I don't want some attribute data to be public or they seem too large to send you. Should I drop, summarize or generalize data before providing you?

    We appreciate it if you send us the whole dataset. As described above, fields other than the required ones are not made public without your permission.

    Also, we can summarize data to show up on the OBIS-SEAMAP web site while holding the complete data in our database. Consider this an offsite archive for you data, if you will.

    Do I need an account on your site to provide data?

    As long as you send us your data as email attachments, you don't need to register yourself.
    We will create your account for your review, though.

    How do I prepare metadata?

    Once the dataset is registered in the OBIS-SEAMAP database, we let you review it. In this review, you have chance to edit metadata through web interface. In general, you want to edit abstract, porpuse, contact information. We appreciate it if you fill out field descriptions.
    If you provide us metadata in the form of journal articles, text and so on, we try to fill out the metadata fields as much as possible.
    The following information is automatically generated.

    • Species taxonomic information
    • Geographic extent

    I found some data wrong or want to update them. How can I update the data?

    Depending on the amount of data needed to update, you can send us the whole data or let us know the data to be updated.

    How are my data treated on OBIS-SEAMAP or used by users?

    Your dataset is listed in 'Datasets' page by institution. In Detail page, all the metadata you put will be viewed. OBIS-SEAMAP users can download your data in CSV or ESRI shapefile formats, which include the required fields only. No additional fields are available without your consent.
    When getting to Detail page or trying to download data, users will be shown OBIS-SEAMAP Terms of Use which they must agree to proceed. In short, the Terms of Use restricts users from using your data in any publication without obtaining your permission.
    Your data will be searched, mapped and summarized along with other datasets. This is often the case when users want to extract observations for species in question.
    Finally, your data will be connected to searchable clearinghouses such as OBIS, FGDC, NBII, Geography Network and KNB.

    Why should I give my data to OBIS-SEAMAP? I put a lot of time and effort into the production of the datasets and would have hoped for some payment for them.

    We believe that colleagues who opt to collaborate with us by incorporating their data into OBIS-SEAMAP will benefit because:

    • The research / results of the contributors will reach a broader and more diverse community;
    • The work of individual researchers will become integrated into a larger whole, and thus become easier to assimilate, while remaining theirs in terms of scientific credit;
    • The integration into OBIS contributes to an ever-growing scientific legacy for future generations.

    Repayment for sharing data with the OBIS-SEAMAP project includes the following:
    • satisfaction to contribute to the scientific community and public understanding of the global ocean.
      • your data will help address research questions over larger spatial - temporal scales.
      • linkages with other OBIS initiatives will allow studies across taxonomic groups.
    • data posted on OBIS-SEAMAP will be enriched in a variety of ways:
      • standardized metadata and searching / subsetting tools, will be displayed via an online mapping server.
      • eventually, OBIS-SEAMAP data will be connected to searchable clearinghouses such as OBIS, FGDC, NBII, Geography Network and KNB.
      • as a data contributor you can provide valuable feedback as to which specific features / tools you would like us to implement.
    • posting information on OBIS-SEAMAP provides a convenient way for data dissemination / outreach.
      • make data available to collaborators.
      • impress funders.
      • develop new collaborations.
      • outreach to the general public (essential component of NSF-funded projects).
    • OBIS-SEAMAP provides a dynamic data archive.
      • the checking of scientific names in OBIS-SEAMAP datasets may lead to the identification of errors, which may not have been noticed otherwise.
      • scientific names will be automatically updated via the OBIS system.
      • OBIS-SEAMAP datasets will be archived in an easily accessible, searchable database.
      • The OBIS-SEAMAP database will also serve as a back-up system.

    I have not "exhausted" the use of my data and still have many plans for further analysis. I would like to complete this before I submit any data to OBIS-SEAMAP. Are there accommodations for this scenario, or are there incentives for me to make the data available sooner?

    We would like to provide the ability to use our mapping, metadata and other tools for private use with the ability to later 'publish' to the outside world by simply checking a box to share the dataset.

    However, this arrangement would be temporary (up to 1 month), and would serve as a way to entice weary providers to contribute their datasets. Eventually, we envision that every dataset in the OBIS-SEAMAP system would be made publicly-available.

    At what stage do "users" of the dataset have to contact the owners for their permission to publish? I would prefer a system whereby the user can download the data but has to submit a proposal to the owner before any analysis begins. This gives the opportunity for collaborations - obviously, more potential for joint publications which is an incentive.

    Also as part of the dataset management interface, we would like to allow the data providers to determine which aspects of the data (i.e., maps, metadata or raw data) are available to the general public. Likewise for each type of data per dataset we could limit it's use by certain terms, such as needing to agree to terms of use, filling out a form with contact information and intent for use, or needing to contact the data provider first before full download.

    We have envisioned several ways users will be able to manage their OBIS-SEAMAP datasets. In addition to the terms of use, users will be able to manage individual datasets (and products) through their personal MyData profile section.


    • Users will be able to check a box to make datasets publicly available.
    • Users will be able to determine whether they want to receive an automatic email message every time one of their datasets is downloaded.
    • Users will be able to petition that users fill out an electronic form with contact information and intent for use, before they access specific datasets.
    • Additionally, the MyData section will summarize the profile (e.g., country / domain of origin) of users accessing specific datasets.

    How can we reconcile the more restrictive OBIS-SEAMAP terms of use with the OBIS / GBIF policies of free, unrestricted flow of information?

    GBIF advocated that biogeographic data be made available freely for use and analysis. Nevertheless, GBIF respects the proprietary rights and the terms of use agreements with data providers. Thus, GBIF will be sensitive to the OBIS-SEAMAP data use restrictions.

    How would this work realistically, since once users will be able to access OBIS-SEAMAP data through any OBIS portal, and will not be required to login or agree to OBIS-SEAMAP terms of use?

    We could make the minimum required data (lat, long, time, species name) available through the OBIS system, and direct users to the OBIS-SEAMAP site for additional information, such as meta-data and survey effort information. Once users enter the OBIS-MAP site, they would be subject to more stringent terms of use.

    The SEAMAP Terms of Use

    How do scientific journals perceive the OBIS-SEAMAP "terms of use" ?

    We recently asked 12 ecological journals to comment on the following:

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    1) How would you suggest authors cite the OBIS-SEAMAP system ? Do you require a system version number ?

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    2) Upon manuscript submission, do you request a statement from the authors stating that they have obtained permission to use all the data contained in their paper ?

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    3) If a manuscript states that data were obtained from a publicly-available database, does your journal contact the dataset managers directly to check this assertion?

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    4) How would you hanule a paper that had been already published in your journal but had violated the OBIS-SEAMAP terms of use ?

    We will update this page soon with a summary of the responses...

Created by admin
Last modified 2008-08-01 02:41 PM
 

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