{"title":"Comparison of event-related modulation index and traditional methods for evaluating phase-amplitude coupling using simulated brain signals.","authors":"Chung-Chieh Tsai, Hong-Hsiang Liu, Yi-Li Tseng","doi":"10.1007/s00422-022-00944-7","DOIUrl":"https://doi.org/10.1007/s00422-022-00944-7","url":null,"abstract":"<p><p>The investigation of brain oscillations and connectivity has become an important topic in the recent decade. There are several types of interactions between neuronal oscillations, and one of the most interesting among these interactions is phase-amplitude coupling (PAC). Several methods have been proposed to measure the strength of PAC, including the phase-locking value, circular-linear correlation, and modulation index. In the current study, we compared these traditional PAC methods with simulated electroencephalogram signals. Further, to assess the PAC value at each time point, we also compared two recently established methods, event-related phase-locking value and event-related circular-linear correlation, with our newly proposed event-related modulation index (ERMI). Results indicated that the ERMI has better temporal resolution and is more tolerant to noise than the other two event-related methods, suggesting the advantages of utilizing ERMI in evaluating the strength of PAC within a brain region.</p>","PeriodicalId":55374,"journal":{"name":"Biological Cybernetics","volume":null,"pages":null},"PeriodicalIF":1.9,"publicationDate":"2022-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10671428","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Berat Denizdurduran, Henry Markram, Marc-Oliver Gewaltig
{"title":"Correction: Optimum trajectory learning in musculoskeletal systems with model predictive control and deep reinforcement learning.","authors":"Berat Denizdurduran, Henry Markram, Marc-Oliver Gewaltig","doi":"10.1007/s00422-022-00947-4","DOIUrl":"https://doi.org/10.1007/s00422-022-00947-4","url":null,"abstract":"","PeriodicalId":55374,"journal":{"name":"Biological Cybernetics","volume":null,"pages":null},"PeriodicalIF":1.9,"publicationDate":"2022-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"33501320","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Extreme Image Transformations Affect Humans and Machines Differently","authors":"Girik Malik, Dakarai Crowder, E. Mingolla","doi":"10.48550/arXiv.2212.13967","DOIUrl":"https://doi.org/10.48550/arXiv.2212.13967","url":null,"abstract":"Some recent artificial neural networks (ANNs) claim to model aspects of primate neural and human performance data. Their success in object recognition is, however, dependent on exploiting low-level features for solving visual tasks in a way that humans do not. As a result, out-of-distribution or adversarial input is often challenging for ANNs. Humans instead learn abstract patterns and are mostly unaffected by many extreme image distortions. We introduce a set of novel image transforms inspired by neurophysiological findings and evaluate humans and ANNs on an object recognition task. We show that machines perform better than humans for certain transforms and struggle to perform at par with humans on others that are easy for humans. We quantify the differences in accuracy for humans and machines and find a ranking of difficulty for our transforms for human data. We also suggest how certain characteristics of human visual processing can be adapted to improve the performance of ANNs for our difficult-for-machines transforms.","PeriodicalId":55374,"journal":{"name":"Biological Cybernetics","volume":null,"pages":null},"PeriodicalIF":1.9,"publicationDate":"2022-11-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"44875864","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Biological CyberneticsPub Date : 2022-08-01Epub Date: 2022-06-21DOI: 10.1007/s00422-022-00937-6
Hervé Bourlard, Selen Hande Kabil
{"title":"Autoencoders reloaded.","authors":"Hervé Bourlard, Selen Hande Kabil","doi":"10.1007/s00422-022-00937-6","DOIUrl":"https://doi.org/10.1007/s00422-022-00937-6","url":null,"abstract":"<p><p>In Bourlard and Kamp (Biol Cybern 59(4):291-294, 1998), it was theoretically proven that autoencoders (AE) with single hidden layer (previously called \"auto-associative multilayer perceptrons\") were, in the best case, implementing singular value decomposition (SVD) Golub and Reinsch (Linear algebra, Singular value decomposition and least squares solutions, pp 134-151. Springer, 1971), equivalent to principal component analysis (PCA) Hotelling (Educ Psychol 24(6/7):417-441, 1993); Jolliffe (Principal component analysis, springer series in statistics, 2nd edn. Springer, New York ). That is, AE are able to derive the eigenvalues that represent the amount of variance covered by each component even with the presence of the nonlinear function (sigmoid-like, or any other nonlinear functions) present on their hidden units. Today, with the renewed interest in \"deep neural networks\" (DNN), multiple types of (deep) AE are being investigated as an alternative to manifold learning Cayton (Univ California San Diego Tech Rep 12(1-17):1, 2005) for conducting nonlinear feature extraction or fusion, each with its own specific (expected) properties. Many of those AE are currently being developed as powerful, nonlinear encoder-decoder models, or used to generate reduced and discriminant feature sets that are more amenable to different modeling and classification tasks. In this paper, we start by recalling and further clarifying the main conclusions of Bourlard and Kamp (Biol Cybern 59(4):291-294, 1998), supporting them by extensive empirical evidences, which were not possible to be provided previously (in 1988), due to the dataset and processing limitations. Upon full understanding of the underlying mechanisms, we show that it remains hard (although feasible) to go beyond the state-of-the-art PCA/SVD techniques for auto-association. Finally, we present a brief overview on different autoencoder models that are mainly in use today and discuss their rationale, relations and application areas.</p>","PeriodicalId":55374,"journal":{"name":"Biological Cybernetics","volume":null,"pages":null},"PeriodicalIF":1.9,"publicationDate":"2022-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9287259/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40121803","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Biological CyberneticsPub Date : 2022-08-01Epub Date: 2022-06-20DOI: 10.1007/s00422-022-00936-7
Aida Hajizadeh, Artur Matysiak, Matthias Wolfrum, Patrick J C May, Reinhard König
{"title":"Auditory cortex modelled as a dynamical network of oscillators: understanding event-related fields and their adaptation.","authors":"Aida Hajizadeh, Artur Matysiak, Matthias Wolfrum, Patrick J C May, Reinhard König","doi":"10.1007/s00422-022-00936-7","DOIUrl":"https://doi.org/10.1007/s00422-022-00936-7","url":null,"abstract":"<p><p>Adaptation, the reduction of neuronal responses by repetitive stimulation, is a ubiquitous feature of auditory cortex (AC). It is not clear what causes adaptation, but short-term synaptic depression (STSD) is a potential candidate for the underlying mechanism. In such a case, adaptation can be directly linked with the way AC produces context-sensitive responses such as mismatch negativity and stimulus-specific adaptation observed on the single-unit level. We examined this hypothesis via a computational model based on AC anatomy, which includes serially connected core, belt, and parabelt areas. The model replicates the event-related field (ERF) of the magnetoencephalogram as well as ERF adaptation. The model dynamics are described by excitatory and inhibitory state variables of cell populations, with the excitatory connections modulated by STSD. We analysed the system dynamics by linearising the firing rates and solving the STSD equation using time-scale separation. This allows for characterisation of AC dynamics as a superposition of damped harmonic oscillators, so-called normal modes. We show that repetition suppression of the N1m is due to a mixture of causes, with stimulus repetition modifying both the amplitudes and the frequencies of the normal modes. In this view, adaptation results from a complete reorganisation of AC dynamics rather than a reduction of activity in discrete sources. Further, both the network structure and the balance between excitation and inhibition contribute significantly to the rate with which AC recovers from adaptation. This lifetime of adaptation is longer in the belt and parabelt than in the core area, despite the time constants of STSD being spatially homogeneous. Finally, we critically evaluate the use of a single exponential function to describe recovery from adaptation.</p>","PeriodicalId":55374,"journal":{"name":"Biological Cybernetics","volume":null,"pages":null},"PeriodicalIF":1.9,"publicationDate":"2022-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9287241/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39999787","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Biological CyberneticsPub Date : 2022-08-01Epub Date: 2022-06-20DOI: 10.1007/s00422-022-00938-5
Randall D Beer
{"title":"Codimension-2 parameter space structure of continuous-time recurrent neural networks.","authors":"Randall D Beer","doi":"10.1007/s00422-022-00938-5","DOIUrl":"https://doi.org/10.1007/s00422-022-00938-5","url":null,"abstract":"<p><p>If we are ever to move beyond the study of isolated special cases in theoretical neuroscience, we need to develop more general theories of neural circuits over a given neural model. The present paper considers this challenge in the context of continuous-time recurrent neural networks (CTRNNs), a simple but dynamically universal model that has been widely utilized in both computational neuroscience and neural networks. Here, we extend previous work on the parameter space structure of codimension-1 local bifurcations in CTRNNs to include codimension-2 local bifurcation manifolds. Specifically, we derive the necessary conditions for all generic local codimension-2 bifurcations for general CTRNNs, specialize these conditions to circuits containing from one to four neurons, illustrate in full detail the application of these conditions to example circuits, derive closed-form expressions for these bifurcation manifolds where possible, and demonstrate how this analysis allows us to find and trace several global codimension-1 bifurcation manifolds that originate from the codimension-2 bifurcations.</p>","PeriodicalId":55374,"journal":{"name":"Biological Cybernetics","volume":null,"pages":null},"PeriodicalIF":1.9,"publicationDate":"2022-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40073022","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Dissecting cell fate dynamics in pediatric glioblastoma through the lens of complex systems and cellular cybernetics","authors":"A. Uthamacumaran","doi":"10.1007/s00422-022-00935-8","DOIUrl":"https://doi.org/10.1007/s00422-022-00935-8","url":null,"abstract":"","PeriodicalId":55374,"journal":{"name":"Biological Cybernetics","volume":null,"pages":null},"PeriodicalIF":1.9,"publicationDate":"2022-06-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43382548","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Optimal reaching trajectories based on feedforward control","authors":"Y. Taniai, T. Naniwa, J. Nishii","doi":"10.1007/s00422-022-00939-4","DOIUrl":"https://doi.org/10.1007/s00422-022-00939-4","url":null,"abstract":"","PeriodicalId":55374,"journal":{"name":"Biological Cybernetics","volume":null,"pages":null},"PeriodicalIF":1.9,"publicationDate":"2022-06-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49023738","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Biological CyberneticsPub Date : 2022-06-01Epub Date: 2022-01-04DOI: 10.1007/s00422-021-00917-2
Alexander J White
{"title":"Sensory feedback expands dynamic complexity and aids in robustness against noise.","authors":"Alexander J White","doi":"10.1007/s00422-021-00917-2","DOIUrl":"https://doi.org/10.1007/s00422-021-00917-2","url":null,"abstract":"<p><p>It has been hypothesized that sensory feedback is a critical component in determining the functionality of a central pattern generator. To test this, Yu and Thomas's recent work Yu and Thomas (Biol Cybern 115(2):135-160, 2021) built a model of a half-center oscillator coupled to a simple muscular model with sensory feedback. They showed that sensory feedback increases robustness against external noise, while simultaneously expanding the potential repertoire of functions the half-center oscillator can perform. However, they show that this comes at the cost of robustness against internal noise.</p>","PeriodicalId":55374,"journal":{"name":"Biological Cybernetics","volume":null,"pages":null},"PeriodicalIF":1.9,"publicationDate":"2022-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39786035","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Biological CyberneticsPub Date : 2022-06-01Epub Date: 2022-01-18DOI: 10.1007/s00422-021-00918-1
Alexander S Migalev, Kristina D Vigasina, Pavel M Gotovtsev
{"title":"A review of motor neural system robotic modeling approaches and instruments.","authors":"Alexander S Migalev, Kristina D Vigasina, Pavel M Gotovtsev","doi":"10.1007/s00422-021-00918-1","DOIUrl":"https://doi.org/10.1007/s00422-021-00918-1","url":null,"abstract":"<p><p>In this review, we are considering an actively developing tool in neuroscience-robotic modeling. The new perspective and existing application fields, tools, and methods are discussed. We try to determine starting positions and approaches that are useful at the beginning of new research in this field. Among multiple directions of the research is robotic modeling on the level of muscles fibers and their afferents, skin surface sensors, muscles, and joints proprioceptors. Some examples of technical implementation for physical modeling are reviewed. They are software and hardware tools like event-related modeling algorithms, reduced neuron models, robotic drives constructions. We observe existing drives technologies and prospective electric motor types: switched reluctance and transverse flux motors. Next, we look at the existing examples and approaches for robotic modeling of the cerebellum and spinal cord neural networks. These examples show practical methods for the model neural network architecture and adaptation. Those methods allow the use of cortical and spinal cord reflexes for the network training and apply additional artificial blocks for data processing in other brain structures that transmit and receive data from biologically realistic models.</p>","PeriodicalId":55374,"journal":{"name":"Biological Cybernetics","volume":null,"pages":null},"PeriodicalIF":1.9,"publicationDate":"2022-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39691350","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}