NIQuery: Neuroimaging Informatics Query Framework for Data Sharing, Discovery, and Analysis

Event Abstract Back to Event NIQuery: Neuroimaging Informatics Query Framework for Data Sharing, Discovery, and Analysis B. Nolan Nichols1*, Robert F. Dougherty2, Landon T. Detwiler1, Gunnar Schaefer2, Randall J. Frank1, James F. Brinkley1, Brian A. Wandell2 and Thomas J. Grabowski1 1 Integrated Brain Imaging Center, University of Washington, Seattle, WA, United States 2 Center for Cognitive and Neurobiological Imaging, Stanford University, Stanford, CA, United States Scientific discovery about the human brain will be accelerated by neuroinformatics services on the programmable web. Just as bioinformatics databases provide services for molecular data, a scalable service-oriented framework is needed to take advantage of the large number of human neuroimaging data sets now available online. We have developed a specification, NIQuery, for remote access to observation-level data in distributed and heterogeneous image-specialized databases. NIQuery integrates emerging open source standards for metadata description, access & query, and provides investigators with computational access to voxel-level data. The protocol supporting this functionality consists of: 1) a persistent Session object that wraps databases (e.g. XNAT[1], NIMS[2], Allen Institute[3]), exposes the NIQuery application programming interface, and serves objects and requests; 2) a Query object that provides a mechanism to interrogate databases with user defined and/or predefined web-accessible queries; 3) a Data object conforming to a supported 'image' data model (e.g., DICOM, NIfTI, etc.) that provides a mechanism to return pixel data to an application; and 4) a Workflow object through which a server provides a computational service on a Data object. A registry service (www.niquery.org) provides an index of available NIQuery servers, as well as the query, data, and workflow objects available on each server. NIQuery enables client applications to discover shared neuroimaging data using metadata-level distributed queries and then execute image processing workflows on discovered data at their source, on a cached copy in the cloud, or locally. A sample implementation of this framework involves exporting a snapshot of XNAT and NIMS databases into XCEDE XML files, indexing the snapshots with the NIQuery registry service, and remotely calculating quality control metrics on resting-state fMRI data. These informatics tools will support agile exploration and reuse of open access neuroimaging data. References 1. Marcus DS, Olsen TR, Ramaratnam M, Buckner RL. The Extensible Neuroimaging Archive Toolkit: an informatics platform for managing, exploring, and sharing neuroimaging data. Neuroinformatics. 2. Neurobiological Image Management System. http://github.com/cni/nims 3. Zeng H, et. al. 2012. Large-Scale Cellular-Resolution Gene Profiling in Human Neocortex Reveals Species-Specific Molecular Signatures. Cell. Keywords: General neuroinformatics Conference: 5th INCF Congress of Neuroinformatics, Munich, Germany, 10 Sep - 12 Sep, 2012. Presentation Type: Poster Topic: Neuroinformatics Citation: Nichols B, Dougherty R, Detwiler L, Schaefer G, Frank R, Brinkley J, Wandell B and Grabowski T (2014). NIQuery: Neuroimaging Informatics Query Framework for Data Sharing, Discovery, and Analysis. Front. Neuroinform. Conference Abstract: 5th INCF Congress of Neuroinformatics. doi: 10.3389/conf.fninf.2014.08.00124 Copyright: The abstracts in this collection have not been subject to any Frontiers peer review or checks, and are not endorsed by Frontiers. They are made available through the Frontiers publishing platform as a service to conference organizers and presenters. The copyright in the individual abstracts is owned by the author of each abstract or his/her employer unless otherwise stated. Each abstract, as well as the collection of abstracts, are published under a Creative Commons CC-BY 4.0 (attribution) licence (https://creativecommons.org/licenses/by/4.0/) and may thus be reproduced, translated, adapted and be the subject of derivative works provided the authors and Frontiers are attributed. For Frontiers’ terms and conditions please see https://www.frontiersin.org/legal/terms-and-conditions. Received: 21 Mar 2013; Published Online: 27 Feb 2014. * Correspondence: Dr. B. Nolan Nichols, Integrated Brain Imaging Center, University of Washington, Seattle, WA, Seattle, United States, nolan.nichols@gmail.com Login Required This action requires you to be registered with Frontiers and logged in. To register or login click here. Abstract Info Abstract The Authors in Frontiers B. Nolan Nichols Robert F. Dougherty Landon T. Detwiler Gunnar Schaefer Randall J. Frank James F. Brinkley Brian A. Wandell Thomas J. Grabowski Google B. Nolan Nichols Robert F. Dougherty Landon T. Detwiler Gunnar Schaefer Randall J. Frank James F. Brinkley Brian A. Wandell Thomas J. Grabowski Google Scholar B. Nolan Nichols Robert F. Dougherty Landon T. Detwiler Gunnar Schaefer Randall J. Frank James F. Brinkley Brian A. Wandell Thomas J. Grabowski PubMed B. Nolan Nichols Robert F. Dougherty Landon T. Detwiler Gunnar Schaefer Randall J. Frank James F. Brinkley Brian A. Wandell Thomas J. Grabowski Related Article in Frontiers Google Scholar PubMed Abstract Close Back to top Javascript is disabled. Please enable Javascript in your browser settings in order to see all the content on this page.