This article is a commentary on:
Software and hardware infrastructure for research in electrophysiology
Roman Mouček1,2*- 1Department of Computer Science and Engineering, University of West Bohemia, Plzen, Czech Republic
- 2New Technologies for the Information Society, University of West Bohemia, Plzen, Czech Republic
A corrigendum on
Software and hardware infrastructure for research in electrophysiology
by Mouček, R., Ježek, P., Vařeka, L., Řondík, T., Brůha, P., Papež, V., et al. (2014). Front. Neuroinform. 8:20. doi: 10.3389/fninf.2014.00020
This article adds Yann Le Franc as a co-author of the technology report article “Software and Hardware Infrastructure for Research in Electrophysiology,” describes his individual contribution to the article, and presents changes in two paragraphs in Section 2.4, where an additional reference is also provided. Moreover, the members from the OEN group who work and cooperate on building OEN are personally acknowledged.
Co-author: Yann Le Franc
Affiliation: e-Science Data Factory S.A.S.U., Paris, France; Ludwig-Maximilians-Universität München, Planegg-Martinsried, Germany; University of Antwerp, Antwerpen, Belgium
Authors' Contributions
Yann Le Franc contributed to the Figures 3,4 and 8 and to the work on the Ontology for describing Experimental Neurophysiology (OEN).
Section 2.4
Old version:
The group follows the best practices for creating ontologies, for example, it cooperates with community of researchers who design and create ontologies, uses existing data formats and repositories (odML, HDF5), and reuses existing resources (terms, ontologies—NEMO, OBI). For the general description of experimental neurophysiology, the terms from ontologies NEMO and OBI are relevant. However, the set of the domain terms is still not complete in these ontologies (information stored in the EEG/ERP Portal cannot be fully described by these ontologies) and OEN will be finally an extension of OBI (e.g., the granularity of OBI for devices and related information will be extended).
New version:
The group follows the best practices for creating ontologies, for example, it cooperates with community of researchers who design and create ontologies, uses existing data formats and repositories (odML, HDF5), and reuses existing resources (terms, ontologies—NEMO, OBI). For the general description of experimental neurophysiology, the terms from ontologies NEMO and OBI are relevant. However, the set of the domain terms needed to describe the information stored in the EEG/ERP Portal is not yet complete in these ontologies. OEN aims at defining these missing terms and at term, should be used to propose an extension of OBI's neurophysiology model (e.g., the granularity of OBI for devices and related information will be extended).
Old version:
Terminologies within OEN have been primarily developed in the odML format. Subsequently, an OWL file has been constructed aided by Ontofox (Xiang et al., 2010). The current developer's version of OEN is available at https://github.com/G-Node/OEN.
New version:
The OEN device branch development is based on the odML terminology (Grewe et al., 2011), concepts gathered by the Neuroscience Information Framework (NIF) and concepts used in the EEGBase data model to describe setups and setup configurations. The gathered terms are currently mapped with the aforementioned ontologies. Subsequently, an OWL file has been constructed to contain OEN terms and the mapped terms. Existing terms in other ontologies will be imported using the MIREOT approach (Courtot et al., 2011), aided by Ontofox (Xiang et al., 2010). The current developer's version of OEN is available at https://github.com/G-Node/OEN.
Conflict of Interest Statement
The author declares that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
Acknowledgments
We thank the members of the OEN group Anita Bandrowski, Jan Grewe, Shreejoy Tripathy, and Thomas Wachtler for their work and long-term cooperation on building OEN.
References
Courtot, M., Gibson, F., Lister, A. L., Malone, J., Schober, D., Brinkman, R. R., and et al. (2011). MIREOT: the minimum information to reference an external ontology term. J. Appl. Ontol. 6, 23–33. doi: 10.3233/AO-2011-0087
Grewe, J., Wachtler, T., and Benda, J. (2011). A bottom-up approach to data annotation in neurophysiology. Front. Neuroinform. 5:16. doi: 10.3389/fninf.2011.00016
Keywords: electrophysiology, event related potentials, infrastructure, neuroinformatics, workflow, portal, signal processing methods, stimulator
Citation: Mouček R (2014) Corrigendum: Software and hardware infrastructure for research in electrophysiology. Front. Neuroinform. 8:75. doi: 10.3389/fninf.2014.00075
Received: 31 July 2014; Accepted: 20 August 2014;
Published online: 05 September 2014.
Edited by:
Xi Cheng, Lieber Institute for Brain Development, USAReviewed by:
Sam Neymotin, State University of New York, Downstate Medical Center, USAJuliana A. Knocikova, Université de Nice Sophia-Antipolis, France
Copyright © 2014 Mouček. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
*Correspondence: moucek@kiv.zcu.cz