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Approaches to neuroscience data integration

K.-H. Cheung, E. Lim, M. Samwald, H. Chen, L. Marenco, M. E. Holford, T. M. Morse, P. Mutalik, G. M. Shepherd, P. L. Miller
2009 Briefings in Bioinformatics  
These approaches cover a range of activities spanning from registry, discovery and integration of a wide variety of neuroscience data sources.  ...  As the number of neuroscience databases increases, the need for neuroscience data integration grows.  ...  Acknowledgements The authors thank Maryann Martone and Willy WaiHo Wong for providing the OWL version of the Subcellular Anatomy Ontology (SAO) and assisting with their integration into Entrez Neuron.  ... 
doi:10.1093/bib/bbp029 pmid:19505888 pmcid:PMC2691938 fatcat:v63eol2uifcqhbb3sermuzqqya

An Integrative Approach to Study Structural and Functional Network Connectivity in Epilepsy Using Imaging and Signal Data

Sarah J. A. Carr, Arthur Gershon, Nassim Shafiabadi, Samden D. Lhatoo, Curtis Tatsuoka, Satya S. Sahoo
2021 Frontiers in Integrative Neuroscience  
In this paper, we describe the development and application of an integrative workflow to analyze functional and structural connectivity measures during seizure events using stereotactic electroencephalogram  ...  We applied a hierarchical clustering based network analysis method over the functional connectivity data to characterize the organization of brain network into modules using data from 27 events across  ...  Initially, MRtrix's denoising function was Frontiers in Integrative Neuroscience | www.frontiersin.org FIGURE 1 | Workflow-based approach for integrative analysis of structural (L) and functional (R) connectivity  ... 
doi:10.3389/fnint.2020.491403 pmid:33510622 pmcid:PMC7835283 fatcat:xg5qyivzfzeshehetkbhxfbyce

Introduction to the Special Section on theory and data in categorization: Integrating computational, behavioral, and cognitive neuroscience approaches

Stephan Lewandowsky, Thomas J. Palmeri, Michael R. Waldmann
2012 Journal of Experimental Psychology. Learning, Memory and Cognition  
This special section brings together behavioral, computational, mathematical, and neuroimaging approaches to understand the processes underlying category learning.  ...  , and with cognitive neuroscience findings influencing the development and refinement of models.  ...  to successfully explain a large body of data from neuropsychological, neuroimaging, and animal neuroscience studies" (Poldrack & Foerde, 2008, p. 203) .  ... 
doi:10.1037/a0028943 pmid:22746949 fatcat:mj4tlyxsared5ogf6s63le3gva

NeuroExtract: Facilitating Neuroscience-oriented Retrieval from Broadly-focused Bioscience Databases Using Text-based Query Mediation

C. J. Crasto, P. Masiar, P. L. Miller
2007 JAMIA Journal of the American Medical Informatics Association  
A b s t r a c t This paper describes NeuroExtract, a pilot system which facilitates the integrated retrieval of Internet-based information relevant to the neurosciences.  ...  This project is a first step in exploring how this general approach might be used, in conjunction with other query mediation approaches, to facilitate the integration of many Internet-accessible resources  ...  This paper describes one approach to trying to making neuroscience-specific data retrieval more flexible and easily integrated.  ... 
doi:10.1197/jamia.m2321 pmid:17329721 pmcid:PMC2244880 fatcat:2zjizaaftvg45njuke3lixyyhe

Big Data, Big Responsibility! Building best-practice privacy strategies into a large-scale neuroinformatics platform

Christina Popovich, Francis Jeanson, Brendan Behan, Shannon Lefaivre, Aparna Shukla
2017 International Journal of Population Data Science  
We believe that Brain-CODE is a powerful and advantageous tool; moving neuroscience research from independent silos to an integrative system approach for improving patient health.  ...  Our vision is for the platform to act as an informatics catalyst; encouraging multidisciplinary research collaboration, data integration, and innovation in neuroscience research.  ...  We believe that Brain-CODE is a powerful and advantageous tool; moving neuroscience research from independent silos to an integrative system approach for improving patient health.  ... 
doi:10.23889/ijpds.v1i1.364 fatcat:7ou2yw7lwjdctn5bj4qq5yuxcy

The NIF DISCO Framework: Facilitating Automated Integration of Neuroscience Content on the Web

Luis Marenco, Rixin Wang, Gordon M. Shepherd, Perry L. Miller
2010 Neuroinformatics  
Although DISCO is used by NIF to facilitate neuroscience data integration, its capabilities have general applicability to other areas of research.  ...  DISCO is a component of the Neuroscience Information Framework (NIF), an NIH Neuroscience Blueprint initiative that facilitates integrated access to diverse neuroscience resources via the Internet.  ...  for Neuroscience.  ... 
doi:10.1007/s12021-010-9068-8 pmid:20387131 pmcid:PMC3819210 fatcat:ss64xep4ebez3lnbbgbsfmh7q4

AlzPharm: integration of neurodegeneration data using RDF

Hugo YK Lam, Luis Marenco, Tim Clark, Yong Gao, June Kinoshita, Gordon Shepherd, Perry Miller, Elizabeth Wu, Gwendolyn T Wong, Nian Liu, Chiquito Crasto, Thomas Morse (+2 others)
2007 BMC Bioinformatics  
To this end, e-Neuroscience seeks to provide an integrated platform for neuroscientists to discover new knowledge through seamless integration of the very diverse types of neuroscience data.  ...  It also shows how advanced queries and inferences can be performed over the integrated data, which are hard to achieve using traditional data integration approaches.  ...  While neuroscientists always need to access and integrate biomedical data that span multiple disciplines, integrating neuroscience data using our proposed Semantic Web approach appears to be effective,  ... 
doi:10.1186/1471-2105-8-s3-s4 pmid:17493287 pmcid:PMC1892101 fatcat:iot4qgjhnfe4tidgz43b23wkja

Using web ontology language to integrate heterogeneous databases in the neurosciences

Hugo Y K Lam, Luis Marenco, Gordon M Shepherd, Perry L Miller, Kei-Hoi Cheung
2006 AMIA Annual Symposium Proceedings  
Integrative neuroscience involves the integration and analysis of diverse types of neuroscience data involving many different experimental techniques.  ...  a common data representation language to facilitate complex cross-database queries.  ...  Our approach involves developing a standardized machine-friendly data representation to expose neuroscience data to web applications/agents that perform data integration and analysis.  ... 
pmid:17238384 pmcid:PMC1839283 fatcat:a476aeznyfcthjapnpe7lernba

The Human Brain Project—Synergy between neuroscience, computing, informatics, and brain-inspired technologies

Katrin Amunts, Alois C. Knoll, Thomas Lippert, Cyriel M. A. Pennartz, Philippe Ryvlin, Alain Destexhe, Viktor K. Jirsa, Egidio D'Angelo, Jan G. Bjaalie
2019 PLoS Biology  
The Human Brain Project (HBP) is a European flagship project with a 10-year horizon aiming to understand the human brain and to translate neuroscience knowledge into medicine and technology.  ...  provides shared and open computing tools and data through the HBP European brain research infrastructure.  ...  To enable interdisciplinary research, a seamless transition and integration of the different components and data is necessary.  ... 
doi:10.1371/journal.pbio.3000344 pmid:31260438 pmcid:PMC6625714 fatcat:3alwg76clzaxhhwubhcxzmdxgy

Data Models in Neuroinformatics [chapter]

Elishai Ezra Tsur
2018 Bioinformatics in the Era of Post Genomics and Big Data  
Advancements in integrated neuroscience are often characterized with data-driven approaches for discovery; these progressions are the result of continuous efforts aimed at developing integrated frameworks  ...  Moreover, data sharing across the neuroscientific community has become an essential component of data-driven approaches to neuroscience as is evident from the number and scale of ongoing national and multinational  ...  HBP approach aims to do the same for neuroscience.  ... 
doi:10.5772/intechopen.73516 fatcat:gpvsaahrhbh3fcgdii4y76bje4

Interacting social minds

2004 Nature Neuroscience  
These different backgrounds yield slightly different approaches to this emerging field.  ...  Like the early days of cognitive neuroscience, however, a large body of research fits into this domain, even though there is as yet no journal, society or annual meeting devoted to the topic.  ...  to know how this approach could be integrated with the neuroscientific and developmental data presented in the rest of the book.  ... 
doi:10.1038/nn0904-897 fatcat:r5oabsr5ybfo7k5hcqlgjgwypm

Integration of Anti-Corruption Education (PAK) In Islamic Religious Education (PAI) With Neuroscience Approach (Multi-Case Study in Brain Friendly PAUD: I Sleman Kindergarten Yogyakarta)

Suyadi Suyadi
2019 Inferensi Jurnal Penelitian Sosial Keagamaan  
This study aims to integrate PAI and Anti-Corruption Education (PAK) with neuroscience approach in PAUD.  ...  This research integrates PAK and PAI by extending the forms of corruption into Gernas Manjur and deepening the themes of PAI learning based on neuroscience learning theory.  ...  Interpretation of data was done by theocratization to develop integration model or formula of PAK and PAI through neuroscience approach in I Sleman Kindergarten Yogyakarta.  ... 
doi:10.18326/infsl3.v12i2.307-330 fatcat:wo7awgzu3bfsfiez5nibd7wyai

Towards a semantic framework for an integrative description of neuroscience patterns and studies: a case for emotion-related data

Charalampos Bratsas, Christos A Frantzidis, Manousos Klados, Christos Papadelis, Costas Pappas, Panagiotis D Bamidis
2009 Studies in Health Technology and Informatics  
To this end, the current piece of work aims to provide a global theoretical framework using ontologies and semantic rules to describe neuroscience studies.  ...  view of neuroscience theories.  ...  Event-related oscillations (EROs) of certain brain frequencies may be a promising approach for the creation of the integrative neuroscience.  ... 
pmid:19745322 fatcat:bby4z3migzamxngxpo34jmuxp4

Biological Databases for Behavioral Neurobiology [chapter]

Erich J. Baker
2012 International review of neurobiology  
The focus is on the classes of databases, data curation, and advanced applications in bioinformatics using examples largely drawn from research efforts in behavioral neuroscience.  ...  This chapter provides foundational information on the diversity and prevalence of databases, how data structures support the various needs of behavioral neuroscience analysis and interpretation.  ...  Managing secondary data One approach to reduce confounding background clatter of data with low information content is to focus database integration efforts on published or peer-reviewed data sets.  ... 
doi:10.1016/b978-0-12-388408-4.00002-2 pmid:23195119 pmcid:PMC4222244 fatcat:qx33zok4jfdmxpdhujncrwd6u4

BioMediator data integration: beyond genomics to neuroscience data

K Wang, P Tarczy-Hornoch, R Shaker, P Mork, J F Brinkley
2005 AMIA Annual Symposium Proceedings  
Then we discuss the benefits and potential limitations of the BioMediator system as a general data integration solution for different user groups in genomic and neuroscience research domains.  ...  The BioMediator system developed at the University of Washington (UW) provides a theoretical and practical foundation for data integration across diverse biomedical research domains and various data types  ...  ACKNOWLEDGEMENTS We would like to thank J. Barbero and S. E. Thiebaud for their contribution.  ... 
pmid:16779146 pmcid:PMC1560529 fatcat:p4ht3j5qobc35nsiesi77ebwgy
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