To respond to the needs for advanced infrastructure for collaborative biomedicine, the NCRR Biomedical Informatics Research Network (BIRN) was established to develop a federated and distributed infrastructure for the storage, retrieval, analysis, and documentation of biomedical imaging data. The network of BIRN participants initially involved three testbeds with a neuroscience emphasis. The BIRN Coordinating Center (BIRN CC) is an important piece in the overall BIRN network, serving to develop, implement, and support the information technology infrastructure necessary to achieve distributed collaborations and data sharing between BIRN users. The current BIRN CC consists of a partnership between computer scientists, neuroscientists, and engineers based at the San Diego Super Computing Center (SDSC). In this proposal, we address issues that have hindered collaborative research effort. We will evolve BIRN with new capabilities, using proven techniques that are already being utilized in other disciplines to automate the data publication process and to form """"""""virtual data warehouses"""""""" that provides unified query interfaces over disparate and distributed data sources Specifically: 1) we will transition the BIRN CC to a new site (ISI at USC);2) migrate the core infrastructure to a virtual machine based deployment strategy;3) leverage cyberinfrastructure tools to provide stability, scalability and interoperability;4) replace Storage Resource Broker-based data solution with a service-based federated data management infrastructure, 4) move the BIRN Data Repository to storage hosted at ISI/USC, 5) migrate and support the most mature and extensible tools currently used by BIRN user base new services framework;6) create an infrastructure allowing other developers to integrate tools into BIRN, 7) implement pragmatic data curation procedures focusing on creating a framework for using multiple ontologies. Finally, we propose a new. governance structure that will be more responsive to the needs of the growing BIRN community. This new model will allow expansion of the BIRN user base and domains and will position BIRN at the forefront of new efforts to store primary data linked to peer-reviewed publication, taking advantage of new NIH open-access policies.
Biomedical research benefits greatly from the integration of biomedical imaging, clinical, and behavioral data from multiple independent institutions. This project will provide a data sharing infrastructure that will enable researchers to investigate complex data-driven problems, otherwise impossible. The impact will be dramatic as multi-model data analysis has become fundamental to the development of evidence-based medicine.
|Zhang, Xinyuan; Peng, Jie; Xu, Man et al. (2017) Denoise diffusion-weighted images using higher-order singular value decomposition. Neuroimage 156:128-145|
|Wang, Lei; Alpert, Kathryn I; Calhoun, Vince D et al. (2016) SchizConnect: Mediating neuroimaging databases on schizophrenia and related disorders for large-scale integration. Neuroimage 124:1155-67|
|Chard, Kyle; Lidman, Mattias; McCollam, Brendan et al. (2016) Globus Nexus: A Platform-as-a-Service Provider of Research Identity, Profile, and Group Management. Future Gener Comput Syst 56:571-583|
|Dang, Shilpa; Chaudhury, Santanu; Lall, Brejesh et al. (2015) Assessing assumptions of multivariate linear regression framework implemented for directionality analysis of fMRI. Conf Proc IEEE Eng Med Biol Soc 2015:2868-71|
|Dinov, Ivo D; Petrosyan, Petros; Liu, Zhizhong et al. (2014) High-throughput neuroimaging-genetics computational infrastructure. Front Neuroinform 8:41|
|Dinov, Ivo D; Petrosyan, Petros; Liu, Zhizhong et al. (2014) The perfect neuroimaging-genetics-computation storm: collision of petabytes of data, millions of hardware devices and thousands of software tools. Brain Imaging Behav 8:311-22|
|Marcus, Daniel S; Harms, Michael P; Snyder, Abraham Z et al. (2013) Human Connectome Project informatics: quality control, database services, and data visualization. Neuroimage 80:202-19|
|Ramakrishnan, Cartic; Patnia, Abhishek; Hovy, Eduard et al. (2012) Layout-aware text extraction from full-text PDF of scientific articles. Source Code Biol Med 7:7|
|Sansone, Susanna-Assunta; Rocca-Serra, Philippe; Field, Dawn et al. (2012) Toward interoperable bioscience data. Nat Genet 44:121-6|
|Russ, Thomas A; Ramakrishnan, Cartic; Hovy, Eduard H et al. (2011) Knowledge engineering tools for reasoning with scientific observations and interpretations: a neural connectivity use case. BMC Bioinformatics 12:351|
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