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Widespread Cortical Dysfunction in Schizophrenia: The FBIRN Imaging Consortium

S. G. Potkin, J. M. Ford
2009 Schizophrenia Bulletin  
same subjects studied by the Functional Imaging Biomedical Informatics Research Network (FBIRN) consortium.  ...  The FBIRN consortium uses functional magnetic resonance imaging (fMRI) and structural MR brain imaging to explore clinical and cognitive abnormalities in large samples of schizophrenia patients collected  ...  same subjects studied by the Functional Imaging Biomedical Informatics Research Network (FBIRN) consortium.  ... 
doi:10.1093/schbul/sbn159 pmid:19023124 pmcid:PMC2643955 fatcat:khwtuaclrvgkznekkkhr72tqxa

fMRI Activity Correlated With Auditory Hallucinations During Performance of a Working Memory Task: Data From the FBIRN Consortium Study

C.G. Wible, K. Lee, I. Molina, R. Hashimoto, A.P. Preus, B.J. Roach, J.M. Ford, D.H. Mathalon, G. McCarthey, J.A. Turner, S.G. Potkin, D. O'Leary (+7 others)
2009 Schizophrenia Bulletin  
The data were collected and preprocessed by the functional imaging biomedical informatics research network consortium.  ...  Data were acquired within a multisite consortium and this unique dataset provided the opportunity to analyze data from a large number of subjects who had been tested on the same procedures across sites  ...  Acknowledgments The inclusion of the FBIRN as an author represents the efforts of many otherwise unlisted researchers over the years who also had explicit input into the conception, design, and implementation  ... 
doi:10.1093/schbul/sbn142 pmid:18990710 pmcid:PMC2643958 fatcat:yft5vjdhirf2zganb26wejbcd4

The Function Biomedical Informatics Research Network Data Repository

David B. Keator, Theo G.M. van Erp, Jessica A. Turner, Gary H. Glover, Bryon A. Mueller, Thomas T. Liu, James T. Voyvodic, Jerod Rasmussen, Vince D. Calhoun, Hyo Jong Lee, Arthur W. Toga, Sarah McEwen (+13 others)
2016 NeuroImage  
In the process of achieving these goals the FBIRN test bed generated several multiscanner brain imaging data sets to be shared with the wider scientific community via the BIRN Data Repository (BDR).  ...  The FBIRN Phase 1 data set consists of a traveling subject study of 5 healthy subjects, each scanned on 10 different 1.5 to 4 T scanners.  ...  The funding sources had no role in the study design, data collection, or publication of the data.  ... 
doi:10.1016/j.neuroimage.2015.09.003 pmid:26364863 pmcid:PMC4651841 fatcat:p4ldjemaancj3lzbwupmsl34va

Derived Data Storage and Exchange Workflow for Large-Scale Neuroimaging Analyses on the BIRN Grid

David B. Keator
2009 Frontiers in Neuroinformatics  
The discussion includes an overview of the data structures used in both the XML and the database representations, insight into the design considerations, and the extensibility of the design to support  ...  The difficulties in sharing and combining raw data become amplified after post-processing and/or data analysis in which the new dataset of interest is a function of the original data and may have been  ...  presented here, and the FBIRN consortium members for the data collection and support of the scientists and engineers involved in the project.  ... 
doi:10.3389/neuro.11.030.2009 pmid:19826494 pmcid:PMC2759340 fatcat:cynqiogpbngihl7c36fmykl7p4

Voxel-based Morphometric Multisite Collaborative Study on Schizophrenia

J. M. Segall, J. A. Turner, T. G.M. van Erp, T. White, H. J. Bockholt, R. L. Gollub, B. C. Ho, V. Magnotta, R. E. Jung, R. W. McCarley, S. C. Schulz, J. Lauriello (+4 others)
2009 Schizophrenia Bulletin  
New Haven, CT ued supporting evidence for GM deficits in the temporal lobes, anterior cingulate, and frontal regions in patients with schizophrenia spectrum disorders.  ...  editorial comments on the analyses and interpretation; the remaining authors designed and implemented the experiment, collected the data, and facilitated the imaging and behavioral data sharing to make  ...  Acknowledgments Segall and Calhoun performed the data analyses and interpretation and wrote the manuscript; Turner, van Erp, Bockholt, Gollub, and Ho helped design and implement the experiment and provided  ... 
doi:10.1093/schbul/sbn150 pmid:18997157 pmcid:PMC2643956 fatcat:rrsmngu7ibgxjb3h67vqopyefi

Function biomedical informatics research network recommendations for prospective multicenter functional MRI studies

Gary H. Glover, Bryon A. Mueller, Jessica A. Turner, Theo G.M. van Erp, Thomas T. Liu, Douglas N. Greve, James T. Voyvodic, Jerod Rasmussen, Gregory G. Brown, David B. Keator, Vince D. Calhoun, Hyo Jong Lee (+13 others)
2012 Journal of Magnetic Resonance Imaging  
Acknowledgments The authors are grateful to Liv McMillan (UC Irvine), who served initially as research coordinator, and then as senior research coordinator for the FBIRN following Dr. J.A.  ...  The inclusion of the Function Biomedical Informatics Research Network as an author represents the efforts of many otherwise unlisted researchers who also contributed over the years to the conception, design  ...  with the consortium.  ... 
doi:10.1002/jmri.23572 pmid:22314879 pmcid:PMC3349791 fatcat:ksvoh32ymnduxcsfjpotwrvem4

A Data Management Framework for Distributed Biomedical Research Environments

Rajkumar Kettimuthu, Robert Schuler, David Keator, Martin Feller, Dingying Wei, Michael Link, John Bresnahan, Lee Liming, Joseph Ames, Ann Chervenak, Ian Foster, Carl Kesselman
2010 2010 Sixth IEEE International Conference on e-Science Workshops  
We present a data management framework suitable for such distributed biomedical research environments and describe its application in the context of FBIRN, a distributed data-sharing system for medical  ...  The efficient implementation of such methods is complicated by the fact that the researchers who need to access data are often behind firewalls that prohibit inbound connections.  ...  FBIRN The function BIRN (FBIRN) consortium comprises 10 sites across the United States focused on developing fMRI tools and techniques for both federated data management and multi-site image calibration  ... 
doi:10.1109/esciencew.2010.21 fatcat:ss5ufksfqrgkphhfks7mwj4f64

Automated real-time behavioral and physiological data acquisition and display integrated with stimulus presentation for fMRI

Voyvodic
2011 Frontiers in Neuroinformatics  
These neuroinformatics methods have been adopted for behavioral task control at all sites in the Functional Biomedical Informatics Research Network (FBIRN) multi-center fMRI study.  ...  Although the most common reference for correlation is the timing of a behavioral task performed during the scan, many other behavioral and physiological variables can also influence fMRI signals.  ...  ACKNOWLEDGMENTS The authors thank all of their collaborators in the FBIRN. This work was supported in part by NIH grants P01NS041328 and 1U24RR025736-01.  ... 
doi:10.3389/fninf.2011.00027 pmid:22232596 pmcid:PMC3247706 fatcat:u3bgrrjjpbfqdhy7nmqfpghrue

Heritability of Multivariate Gray Matter Measures in Schizophrenia

Jessica A. Turner, Vince D. Calhoun, Andrew Michael, Theo G. M. van Erp, Stefan Ehrlich, Judith M. Segall, Randy L. Gollub, John Csernansky, Steven G. Potkin, Beng-Choon Ho, Juan Bustillo, S. Charles Schulz (+2 others)
2012 Twin Research and Human Genetics  
Source-based morphometry (SBM) was applied to the gray matter images of the entire sample to determine the effects of diagnosis on networks of covarying structures.  ...  Two components, one including the medial frontal, insular, inferior frontal, and temporal lobes, and the other including the posterior occipital lobe, showed significant familiality (p < .05).  ...  The data used here were a subset of the combined Functional Imaging Biomedical Informatics Research Network (FBIRN) and Multisite Clinical Imaging Consortium (MCIC) dataset from Segall et al. (2009), including  ... 
doi:10.1017/thg.2012.1 pmid:22856368 pmcid:PMC3694574 fatcat:ytwphgpm4zahjaiwrjyrvfscue

Federated Web-accessible Clinical Data Management within an Extensible NeuroImaging Database

I. Burak Ozyurt, David B. Keator, Dingying Wei, Christine Fennema-Notestine, Karen R. Pease, Jeremy Bockholt, Jeffrey S. Grethe
2010 Neuroinformatics  
The database schema is constructed to support the storage of new data types without changes to the underlying schema.  ...  The Clinical Assessment Layout Manager (CALM) allows users to create on-line data entry forms for use within and across sites, through which data is pulled into the underlying database via the generic  ...  Brown at the University of California, San Diego and Steven Potkin at the University of California, Irvine for their support on the work presented here, and the FBIRN consortium members for the data collection  ... 
doi:10.1007/s12021-010-9078-6 pmid:20567938 pmcid:PMC2974931 fatcat:tpy7px3etfdnnpd7nder22hgne

Neuroscience Data Integration through Mediation: An (F)BIRN Case Study

Naveen Ashish, José Luis Ambite, Maria Muslea, Jessica A. Turner
2010 Frontiers in Neuroinformatics  
The system follows the mediation approach, where the data remains at the sources, providers maintain control of the data, and the integration system retrieves data from the sources in real-time in response  ...  We describe an application of the BIRN mediator to the integration of neuroscience experimental data sources.  ...  integration cases within BIRN, namely the Non-Human Primate Research Consortium that integrates data from eight National Primate Research Centers, and to the Cardiovascular Research Grid (CVRG) which requires  ... 
doi:10.3389/fninf.2010.00118 pmid:21228907 pmcid:PMC3017358 fatcat:vlccr2ronvej3ne7s5r566ruam

SchizConnect: Mediating neuroimaging databases on schizophrenia and related disorders for large-scale integration

Lei Wang, Kathryn I. Alpert, Vince D. Calhoun, Derin J. Cobia, David B. Keator, Margaret D. King, Alexandr Kogan, Drew Landis, Marcelo Tallis, Matthew D. Turner, Steven G. Potkin, Jessica A. Turner (+1 others)
2016 NeuroImage  
The current version handles the Data Usage Agreements across different studies, as well as interpreting database-specific terminologies into a common framework.  ...  data sources how many datasets there are, as well as downloading the imaging and related data.  ...  saw its initial theoretical application on schizophrenia neuroimaging data within the FBIRN consortium (Ashish et al., 2010) .  ... 
doi:10.1016/j.neuroimage.2015.06.065 pmid:26142271 pmcid:PMC4651768 fatcat:shca7wpyzfaolaefczeesyhkge

An overview of the quality assurance and quality control of magnetic resonance imaging data for the Ontario Neurodegenerative Disease Research Initiative (ONDRI): pipeline development and neuroinformatics [article]

Christopher J. M. Scott, Stephen R. Arnott, Aditi Chemparathy, Fan Dong, Igor Solovey, Tom Gee, Tanya Schmah, Sofia Chavez, Nancy Lobaugh, Nuwan Nanayakkara, Shuai Liang, Mojdeh Zamyadi (+9 others)
2020 bioRxiv   pre-print
The purpose of the current paper is to describe the steps undertaken by ONDRI to achieve this high standard of data integrity.  ...  The goal of the ONDRI imaging platform is to maximize data quality by implementing vendor-specific harmonized MR imaging protocols (consistent with the Canadian Dementia Imaging Protocol - http://www.cdip-pcid.ca  ...  Healthy Hearts and Minds (CAHHM -http://cahhm.mcmaster.ca/); the Consortium d'Identification de la Maladie d'Alzheimer -Québec (CIMAQ -http:// www.cima-q.ca/); the O2 study from the Consortium The copyright  ... 
doi:10.1101/2020.01.10.896415 fatcat:4gzc33gi35et5e6wlyhxpvzwuq

Multimodal neuromarkers in schizophrenia via cognition-guided MRI fusion

Jing Sui, Shile Qi, Theo G. M. van Erp, Juan Bustillo, Rongtao Jiang, Dongdong Lin, Jessica A. Turner, Eswar Damaraju, Andrew R. Mayer, Yue Cui, Zening Fu, Yuhui Du (+13 others)
2018 Nature Communications  
Results highlight the salience network (gray matter, GM), corpus callosum (fractional anisotropy, FA), central executive and default-mode networks (fractional amplitude of low-frequency fluctuation, fALFF  ...  FALFF features are found to be more sensitive to cognitive domain differences, while the salience network in GM and corpus callosum in FA are highly consistent and predictive of multiple cognitive domains  ...  All subjects were collected from seven FBIRN consortium sites (University of California Irvine, University of California Los Angeles, University of California San Francisco, Duke University, University  ... 
doi:10.1038/s41467-018-05432-w pmid:30072715 pmcid:PMC6072778 fatcat:4w3zoj4y7vg6vm3bpcxhl6q4ue

dSNE: a visualization approach for use with decentralized data [article]

Debbrata Kumar Saha, Vince D. Calhoun, Yuhui DU, Zening FU, Sandeep R. Panta, Sergey M. Plis
2019 bioRxiv   pre-print
Specifically, one needs access to all the samples in order to compute the distance directly between all pairs of points to measure the similarity.  ...  Based on the Modified National Institute of Standards and Technology database (MNIST) and the Columbia Object Image Library (COIL-20) dataset we introduce metrics for measuring the embedding quality and  ...  fBIRN and BSNIP data For the experiment of fBIRN and BSNIP, We run t-SNE separately on both of these datasets.  ... 
doi:10.1101/826974 fatcat:lfyyqkple5ftpfneewqpgfdory
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