Literature DB >> 18946742

The neuroscience information framework: a data and knowledge environment for neuroscience.

Daniel Gardner1, Huda Akil, Giorgio A Ascoli, Douglas M Bowden, William Bug, Duncan E Donohue, David H Goldberg, Bernice Grafstein, Jeffrey S Grethe, Amarnath Gupta, Maryam Halavi, David N Kennedy, Luis Marenco, Maryann E Martone, Perry L Miller, Hans-Michael Müller, Adrian Robert, Gordon M Shepherd, Paul W Sternberg, David C Van Essen, Robert W Williams.   

Abstract

With support from the Institutes and Centers forming the NIH Blueprint for Neuroscience Research, we have designed and implemented a new initiative for integrating access to and use of Web-based neuroscience resources: the Neuroscience Information Framework. The Framework arises from the expressed need of the neuroscience community for neuroinformatic tools and resources to aid scientific inquiry, builds upon prior development of neuroinformatics by the Human Brain Project and others, and directly derives from the Society for Neuroscience's Neuroscience Database Gateway. Partnered with the Society, its Neuroinformatics Committee, and volunteer consultant-collaborators, our multi-site consortium has developed: (1) a comprehensive, dynamic, inventory of Web-accessible neuroscience resources, (2) an extended and integrated terminology describing resources and contents, and (3) a framework accepting and aiding concept-based queries. Evolving instantiations of the Framework may be viewed at http://nif.nih.gov , http://neurogateway.org , and other sites as they come on line.

Entities:  

Mesh:

Year:  2008        PMID: 18946742      PMCID: PMC2661130          DOI: 10.1007/s12021-008-9024-z

Source DB:  PubMed          Journal:  Neuroinformatics        ISSN: 1539-2791


  18 in total

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Authors:  Jintao Wang; Robert W Williams; Kenneth F Manly
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2.  Towards effective and rewarding data sharing.

Authors:  Daniel Gardner; Arthur W Toga; Giorgio A Ascoli; Jackson T Beatty; James F Brinkley; Anders M Dale; Peter T Fox; Esther P Gardner; John S George; Nigel Goddard; Kristen M Harris; Edward H Herskovits; Michael L Hines; Gwen A Jacobs; Russell E Jacobs; Edward G Jones; David N Kennedy; Daniel Y Kimberg; John C Mazziotta; Perry L Miller; Susumu Mori; David C Mountain; Allan L Reiss; Glenn D Rosen; David A Rottenberg; Gordon M Shepherd; Neil R Smalheiser; Kenneth P Smith; Tom Strachan; David C Van Essen; Robert W Williams; Stephen T C Wong
Journal:  Neuroinformatics       Date:  2003

3.  Value added by data sharing: long-term potentiation of neuroscience research. A commentary on the 2007 SfN Satellite Symposium on data sharing.

Authors:  Yuan Liu; Giorgio A Ascoli
Journal:  Neuroinformatics       Date:  2007

4.  Federated access to heterogeneous information resources in the Neuroscience Information Framework (NIF).

Authors:  Amarnath Gupta; William Bug; Luis Marenco; Xufei Qian; Christopher Condit; Arun Rangarajan; Hans Michael Müller; Perry L Miller; Brian Sanders; Jeffrey S Grethe; Vadim Astakhov; Gordon Shepherd; Paul W Sternberg; Maryann E Martone
Journal:  Neuroinformatics       Date:  2008-10-29

5.  Issues in the design of a pilot concept-based query interface for the neuroinformatics information framework.

Authors:  Luis Marenco; Yuli Li; Maryann E Martone; Paul W Sternberg; Gordon M Shepherd; Perry L Miller
Journal:  Neuroinformatics       Date:  2008-10-25

6.  The NIFSTD and BIRNLex vocabularies: building comprehensive ontologies for neuroscience.

Authors:  William J Bug; Giorgio A Ascoli; Jeffrey S Grethe; Amarnath Gupta; Christine Fennema-Notestine; Angela R Laird; Stephen D Larson; Daniel Rubin; Gordon M Shepherd; Jessica A Turner; Maryann E Martone
Journal:  Neuroinformatics       Date:  2008-10-31

7.  The NIF LinkOut broker: a web resource to facilitate federated data integration using NCBI identifiers.

Authors:  Luis Marenco; Giorgio A Ascoli; Maryann E Martone; Gordon M Shepherd; Perry L Miller
Journal:  Neuroinformatics       Date:  2008-10-31

8.  Common data model for neuroscience data and data model exchange.

Authors:  D Gardner; K H Knuth; M Abato; S M Erde; T White; R DeBellis; E P Gardner
Journal:  J Am Med Inform Assoc       Date:  2001 Jan-Feb       Impact factor: 4.497

9.  Terminology for neuroscience data discovery: multi-tree syntax and investigator-derived semantics.

Authors:  Daniel Gardner; David H Goldberg; Bernice Grafstein; Adrian Robert; Esther P Gardner
Journal:  Neuroinformatics       Date:  2008-10-29

10.  Textpresso for neuroscience: searching the full text of thousands of neuroscience research papers.

Authors:  Hans-Michael Müller; Arun Rangarajan; Tracy K Teal; Paul W Sternberg
Journal:  Neuroinformatics       Date:  2008-10-24
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  103 in total

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Authors:  David N Kennedy; Steven M Hodge; Yong Gao; Jean A Frazier; Christian Haselgrove
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2.  Using text mining to link journal articles to neuroanatomical databases.

Authors:  Leon French; Paul Pavlidis
Journal:  J Comp Neurol       Date:  2012-06-01       Impact factor: 3.215

Review 3.  Data publishing and scientific journals: the future of the scientific paper in a world of shared data.

Authors:  Erik De Schutter
Journal:  Neuroinformatics       Date:  2010-10

4.  Foundational model of structural connectivity in the nervous system with a schema for wiring diagrams, connectome, and basic plan architecture.

Authors:  Larry W Swanson; Mihail Bota
Journal:  Proc Natl Acad Sci U S A       Date:  2010-11-15       Impact factor: 11.205

5.  A Digital Repository and Execution Platform for Interactive Scholarly Publications in Neuroscience.

Authors:  Victoria Hodge; Mark Jessop; Martyn Fletcher; Michael Weeks; Aaron Turner; Tom Jackson; Colin Ingram; Leslie Smith; Jim Austin
Journal:  Neuroinformatics       Date:  2016-01

Review 6.  Best behaviour? Ontologies and the formal description of animal behaviour.

Authors:  Georgios V Gkoutos; Robert Hoehndorf; Loukia Tsaprouni; Paul N Schofield
Journal:  Mamm Genome       Date:  2015-07-28       Impact factor: 2.957

7.  Musings of a post-stimulus mind...

Authors:  David N Kennedy
Journal:  Neuroinformatics       Date:  2009-05-12

8.  Spike train analysis toolkit: enabling wider application of information-theoretic techniques to neurophysiology.

Authors:  David H Goldberg; Jonathan D Victor; Esther P Gardner; Daniel Gardner
Journal:  Neuroinformatics       Date:  2009-05-28

9.  Terminology for neuroscience data discovery: multi-tree syntax and investigator-derived semantics.

Authors:  Daniel Gardner; David H Goldberg; Bernice Grafstein; Adrian Robert; Esther P Gardner
Journal:  Neuroinformatics       Date:  2008-10-29

10.  The central role of neuroinformatics in the National Academy of Engineering's grandest challenge: reverse engineer the brain.

Authors:  Badrinath Roysam; William Shain; Giorgio A Ascoli
Journal:  Neuroinformatics       Date:  2009-01-13
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