Amir Homayoun Jafari
Current Organizations / Institutes
The organizations/institutes from the scholar's latest article
Previous Organizations / Institutes
The organizations / institutes from the scholar's other articles in the past ten years
Research Subjects
Amir Homayoun Jafari has a total of 156 co-authors. Here are the top co-authors by number of shared publications:
Zahra Shirzhiyan
Department of Medical Physics and Biomedical Engineering, Tehran University of Medical Sciences (TUMS), Tehran, Iran. -Computational Neuroscience, Institute of Medical Technology, Brandenburg University of Technology Cottbus-Senftenberg
8 shared publications- Mohammad Reza Hadian
Tehran University of Medical Sciences
6 shared publications Morteza Farahi
Department of Medical Physics and Biomedical Engineering, School of Medicine, Tehran University of Medical Sciences, Tehran, Iran
6 shared publications- Ali Fallah
Faculty of Biomedical Engineering Amirkabir University of Technology Tehran Iran
5 shared publications - Hossein Negahban
Mashhad University of Medical Sciences
5 shared publications - Sajad Jafari
Department of Biomedical Engineering, Amirkabir University of Technology (Tehran Polytechnic), Tehran, Iran
5 shared publications
Latest Publications
- Open Access
- 1 July 2025
- Published by Wolters Kluwer Health in Journal of Medical Signals & Sensors
- Vol. 15 (7) , 19
A Nonlinear Method to Identify Seizure Dynamic Trajectory Based on Variance of Recurrence Rate in Human Epilepsy Patients Using EEG
Background: Surgery is a well-established treatment for drug-resistant epilepsy, but outcomes are often suboptimal, especially when no lesion is visible on preoperative imaging. A major challenge in determining the seizure’s origin and spread is interpreting electroencephalogram (EEG) data. Accurately tracing the seizure’s signal trajectory, given the brain’s complex behavior, remains a crucial hurdle. Materials and Methods: In this study, EEG data from 17 patients were analyzed, using the clinical interpretations of the epileptogenic region as the gold standard. Quantification analysis of recurrence plots primarily based on variance in recurrence rate was used to identify the regions involved during seizures based on investigation of the recurrence phenomena between the regions. This method allowed for a stage-wise analysis across EEG electrodes, highlighting simultaneously involved areas. Results: The method effectively distinguished involved from noninvolved regions across anterior, posterior, right temporal, and left temporal areas with macro averaged F-score of 95.54. For the anterior region, it achieved an overall accuracy (correct predictions out of total predictions) of 86.96%, sensitivity (ability to correctly identify seizure-involved regions) of 82.79%, and specificity (ability to correctly identify non-involved regions) of 86.96%. For the other regions, accuracy, sensitivity, and specificity values ranged from 66.0% to 89.13%. Conclusions: This approach could pinpoint brain regions involved in seizures at any stage and could be useful for clinical monitoring and surgical planning. The method’s simplicity and strong performance suggest it is promising for the real-time application during epilepsy treatment.
- 1 July 2025
- Published by Wolters Kluwer Health in Journal of Medical Signals & Sensors
- Vol. 15 (7) , 19
Open AccessA Nonlinear Method to Identify Seizure Dynamic Trajectory Based on Variance of Recurrence Rate in Human Epilepsy Patients Using EEG
Background: Surgery is a well-established treatment for drug-resistant epilepsy, but outcomes are often suboptimal, especially when no lesion is visible on preoperative imaging. A major challenge in determining the seizure’s origin and spread is interpreting electroencephalogram (EEG) data. Accurately tracing the seizure’s signal trajectory, given the brain’s complex behavior, remains a crucial hurdle. Materials and Methods: In this study, EEG data from 17 patients were analyzed, using the clinical interpretations of the epileptogenic region as the gold standard. Quantification analysis of recurrence plots primarily based on variance in recurrence rate was used to identify the regions involved during seizures based on investigation of the recurrence phenomena between the regions. This method allowed for a stage-wise analysis across EEG electrodes, highlighting simultaneously involved areas. Results: The method effectively distinguished involved from noninvolved regions across anterior, posterior, right temporal, and left temporal areas with macro averaged F-score of 95.54. For the anterior region, it achieved an overall accuracy (correct predictions out of total predictions) of 86.96%, sensitivity (ability to correctly identify seizure-involved regions) of 82.79%, and specificity (ability to correctly identify non-involved regions) of 86.96%. For the other regions, accuracy, sensitivity, and specificity values ranged from 66.0% to 89.13%. Conclusions: This approach could pinpoint brain regions involved in seizures at any stage and could be useful for clinical monitoring and surgical planning. The method’s simplicity and strong performance suggest it is promising for the real-time application during epilepsy treatment.
- 12 March 2025
- Published by Springer Nature
- p. 93-104
An Intelligent System for Real-Time Assessment of Cortico-Muscular Coupling Index in ALS Disease
- 12 March 2025
- Published by Springer Nature
- p. 93-104
An Intelligent System for Real-Time Assessment of Cortico-Muscular Coupling Index in ALS Disease
- Open Access
- 19 February 2025
- Published by Brieflands in Health Scope
- Vol. 14 (1)
EEG-Based Evaluation of Mental Workload in a Simulated Industrial Human-Robot Interaction Task
Background: The rapid advancement of robotics and artificial intelligence is poised to revolutionize industrial settings through widespread automation. This study investigates the impact of robotic assistance on human operator mental workload (MWL) within a simulated industrial environment. Utilizing electroencephalography (EEG) to measure changes in alpha and theta band power, we aim to identify the cognitive challenges associated with human-robot collaboration (HRC) and inform the design of safer and more efficient collaborative systems. Objectives: The main objective of the current study was to assess the MWL in a simulated industrial human-robot interaction (HRI) task. Methods: The EEG data were collected from 17 participants (aged 25 - 35 years) using a 64-channel system while they engaged in an ecologically valid robotic task that induced three distinct levels of cognitive load: Low, medium, and high. Subsequent analysis focused on EEG power within the alpha and theta frequency bands, employing repeated-measures ANOVA to assess the impact of cognitive load on brain activity. Results: A repeated-measures ANOVA revealed significant changes in EEG power across different task difficulty levels. The theta and alpha bands in F3, F4, and Fz, as well as the alpha, beta, and gamma bands in P3, P4, and Pz, emerged as promising indicators for differentiating between varying levels of cognitive load in human-robot tasks. Conclusions: Electroencephalography spectral power, particularly within the alpha and theta frequency bands, is a reliable indicator of human MWL. These frequency bands exhibit dynamic changes in response to fluctuating cognitive demands, especially in human-robotic interaction tasks.
- 19 February 2025
- Published by Brieflands in Health Scope
- Vol. 14 (1)
Open AccessEEG-Based Evaluation of Mental Workload in a Simulated Industrial Human-Robot Interaction Task
Background: The rapid advancement of robotics and artificial intelligence is poised to revolutionize industrial settings through widespread automation. This study investigates the impact of robotic assistance on human operator mental workload (MWL) within a simulated industrial environment. Utilizing electroencephalography (EEG) to measure changes in alpha and theta band power, we aim to identify the cognitive challenges associated with human-robot collaboration (HRC) and inform the design of safer and more efficient collaborative systems. Objectives: The main objective of the current study was to assess the MWL in a simulated industrial human-robot interaction (HRI) task. Methods: The EEG data were collected from 17 participants (aged 25 - 35 years) using a 64-channel system while they engaged in an ecologically valid robotic task that induced three distinct levels of cognitive load: Low, medium, and high. Subsequent analysis focused on EEG power within the alpha and theta frequency bands, employing repeated-measures ANOVA to assess the impact of cognitive load on brain activity. Results: A repeated-measures ANOVA revealed significant changes in EEG power across different task difficulty levels. The theta and alpha bands in F3, F4, and Fz, as well as the alpha, beta, and gamma bands in P3, P4, and Pz, emerged as promising indicators for differentiating between varying levels of cognitive load in human-robot tasks. Conclusions: Electroencephalography spectral power, particularly within the alpha and theta frequency bands, is a reliable indicator of human MWL. These frequency bands exhibit dynamic changes in response to fluctuating cognitive demands, especially in human-robotic interaction tasks.
- Open Access
- 28 April 2024
- Published by SCI AND TECH UNIVERSAL INC in Scientia Iranica
Investigating the attentional effect and stimulus selectivity at the brainstem during auditory selective attention to dichotically presented /ba/ and /da/ stimuli
While selective attention is known to modulate speech encoding in cortical responses, it is unclear whether such modulation also occurs in brainstem responses. The present study investigates the impact of selective attention on brainstem responses to consonant-vowel stimuli. The study examined auditory brainstem responses to dichotically delivered /ba/ and /da/ in 15 normal hearing subjects (8 males). Subjects were asked to selectively attend to a stimulus, and their responses were evaluated using the short-time Fourier transform (STFT) and phase difference comparison. Our findings reveal significant changes in the mean phase values for brainstem responses during selective attention. The mean phase values in brainstem responses to da were consistently positive, whereas those in brainstem responses to ba were consistently negative compared to responses without attention. In the steady-state region, the mean difference of the brainstem responses varied in the high frequency (-0.022±0.008, 0.021±0.007) and middle frequency (-0.026±0.008, 0.024±0.007) ranges. Furthermore, the high frequency of the transitional part of the response changed (-0.024±0.01, 0.033±0.009) when attention was directed to /ba/ and /da/, respectively. Our findings suggest that selective attention can significantly alter brainstem responses during auditory processing, resulting in significant phase changes in both the middle and high-frequency ranges.
- 28 April 2024
- Published by SCI AND TECH UNIVERSAL INC in Scientia Iranica
Open AccessInvestigating the attentional effect and stimulus selectivity at the brainstem during auditory selective attention to dichotically presented /ba/ and /da/ stimuli
While selective attention is known to modulate speech encoding in cortical responses, it is unclear whether such modulation also occurs in brainstem responses. The present study investigates the impact of selective attention on brainstem responses to consonant-vowel stimuli. The study examined auditory brainstem responses to dichotically delivered /ba/ and /da/ in 15 normal hearing subjects (8 males). Subjects were asked to selectively attend to a stimulus, and their responses were evaluated using the short-time Fourier transform (STFT) and phase difference comparison. Our findings reveal significant changes in the mean phase values for brainstem responses during selective attention. The mean phase values in brainstem responses to da were consistently positive, whereas those in brainstem responses to ba were consistently negative compared to responses without attention. In the steady-state region, the mean difference of the brainstem responses varied in the high frequency (-0.022±0.008, 0.021±0.007) and middle frequency (-0.026±0.008, 0.024±0.007) ranges. Furthermore, the high frequency of the transitional part of the response changed (-0.024±0.01, 0.033±0.009) when attention was directed to /ba/ and /da/, respectively. Our findings suggest that selective attention can significantly alter brainstem responses during auditory processing, resulting in significant phase changes in both the middle and high-frequency ranges.
- 16 December 2022
- Published by Springer Nature in Cognitive Computation
- Vol. 15 (2) , 694-709
A Novel Unsupervised Spatial–Temporal Learning Mechanism in a Bio-inspired Spiking Neural Network
- 16 December 2022
- Published by Springer Nature in Cognitive Computation
- Vol. 15 (2) , 694-709
A Novel Unsupervised Spatial–Temporal Learning Mechanism in a Bio-inspired Spiking Neural Network
- Open Access
- 14 November 2022
- Published by Springer Nature in Scientific Reports
- Vol. 12 (1) , 1-17
Recognizing intertwined patterns using a network of spiking pattern recognition platforms
Artificial intelligence computing adapted from biology is a suitable platform for the development of intelligent machines by imitating the functional mechanisms of the nervous system in creating high-level activities such as learning, decision making and cognition in today's systems. Here, the concentration is on improvement the cognitive potential of artificial intelligence network with a bio-inspired structure. In this regard, four spiking pattern recognition platforms for recognizing digits and letters of EMNIST, patterns of YALE, and ORL datasets are proposed. All networks are developed based on a similar structure in the input image coding, model of neurons (pyramidal neurons and interneurons) and synapses (excitatory AMPA and inhibitory GABA currents), and learning procedure. Networks 1–4 are trained on Digits, Letters, faces of YALE and ORL, respectively, with the proposed un-supervised, spatial–temporal, and sparse spike-based learning mechanism based on the biological observation of the brain learning. When the networks have reached the highest recognition accuracy in the relevant patterns, the main goal of the article, which is to achieve high-performance pattern recognition system with higher cognitive ability, is followed. The pattern recognition network that is able to detect the combination of multiple patterns which called intertwined patterns has not been discussed yet. Therefore, by integrating four trained spiking pattern recognition platforms in one system configuration, we are able to recognize intertwined patterns. These results are presented for the first time and could be the pioneer of a new generation of pattern recognition networks with a significant ability in smart machines.
- 14 November 2022
- Published by Springer Nature in Scientific Reports
- Vol. 12 (1) , 1-17
Open AccessRecognizing intertwined patterns using a network of spiking pattern recognition platforms
Artificial intelligence computing adapted from biology is a suitable platform for the development of intelligent machines by imitating the functional mechanisms of the nervous system in creating high-level activities such as learning, decision making and cognition in today's systems. Here, the concentration is on improvement the cognitive potential of artificial intelligence network with a bio-inspired structure. In this regard, four spiking pattern recognition platforms for recognizing digits and letters of EMNIST, patterns of YALE, and ORL datasets are proposed. All networks are developed based on a similar structure in the input image coding, model of neurons (pyramidal neurons and interneurons) and synapses (excitatory AMPA and inhibitory GABA currents), and learning procedure. Networks 1–4 are trained on Digits, Letters, faces of YALE and ORL, respectively, with the proposed un-supervised, spatial–temporal, and sparse spike-based learning mechanism based on the biological observation of the brain learning. When the networks have reached the highest recognition accuracy in the relevant patterns, the main goal of the article, which is to achieve high-performance pattern recognition system with higher cognitive ability, is followed. The pattern recognition network that is able to detect the combination of multiple patterns which called intertwined patterns has not been discussed yet. Therefore, by integrating four trained spiking pattern recognition platforms in one system configuration, we are able to recognize intertwined patterns. These results are presented for the first time and could be the pioneer of a new generation of pattern recognition networks with a significant ability in smart machines.
- Open Access
- 1 July 2022
- Published by Public Library of Science (PLoS) in PLOS ONE
- Vol. 17 (7) , e0270757
Sparse representation of brain signals offers effective computation of cortico-muscular coupling value to predict the task-related and non-task sEMG channels: A joint hdEEG-sEMG study
Cortico-muscular interactions play important role in sensorimotor control during motor task and are commonly studied by cortico-muscular coherence (CMC) method using joint electroencephalogram-surface electromyogram (EEG-sEMG) signals. As noise and time delay between the two signals weaken the CMC value, coupling difference between non-task sEMG channels is often undetectable. We used sparse representation of EEG channels to compute CMC and detect coupling for task-related and non-task sEMG signals. High-density joint EEG-sEMG (53 EEG channels, 4 sEMG bipolar channels) signals were acquired from 15 subjects (30.26 ± 4.96 years) during four specific hand and foot contraction tasks (2 dynamic and 2 static contraction). Sparse representations method was applied to detect projection of EEG signals on each sEMG channel. Bayesian optimization was employed to select best-fitted method with tuned hyperparameters on the input feeding data while using 80% data as the train set and 20% as test set. K-fold (K = 5) cross-validation method was used for evaluation of trained model. Two models were trained separately, one for CMC data and the other from sparse representation of EEG channels on each sEMG channel. Sensitivity, specificity, and accuracy criteria were obtained for test dataset to evaluate the performance of task-related and non-task sEMG channels detection. Coupling values were significantly different between grand average of task-related compared to the non-task sEMG channels (Z = -6.33, p< 0.001, task-related median = 2.011, non-task median = 0.112). Strong coupling index was found even in single trial analysis. Sparse representation approach (best fitted model: SVM, Accuracy = 88.12%, Sensitivity = 83.85%, Specificity = 92.45%) outperformed CMC method (best fitted model: KNN, Accuracy = 50.83%, Sensitivity = 52.17%, Specificity = 49.47%). Sparse representation approach offers high performance to detect CMC for discerning the EMG channels involved in the contraction tasks and non-tasks.
- 1 July 2022
- Published by Public Library of Science (PLoS) in PLOS ONE
- Vol. 17 (7) , e0270757
Open AccessSparse representation of brain signals offers effective computation of cortico-muscular coupling value to predict the task-related and non-task sEMG channels: A joint hdEEG-sEMG study
Cortico-muscular interactions play important role in sensorimotor control during motor task and are commonly studied by cortico-muscular coherence (CMC) method using joint electroencephalogram-surface electromyogram (EEG-sEMG) signals. As noise and time delay between the two signals weaken the CMC value, coupling difference between non-task sEMG channels is often undetectable. We used sparse representation of EEG channels to compute CMC and detect coupling for task-related and non-task sEMG signals. High-density joint EEG-sEMG (53 EEG channels, 4 sEMG bipolar channels) signals were acquired from 15 subjects (30.26 ± 4.96 years) during four specific hand and foot contraction tasks (2 dynamic and 2 static contraction). Sparse representations method was applied to detect projection of EEG signals on each sEMG channel. Bayesian optimization was employed to select best-fitted method with tuned hyperparameters on the input feeding data while using 80% data as the train set and 20% as test set. K-fold (K = 5) cross-validation method was used for evaluation of trained model. Two models were trained separately, one for CMC data and the other from sparse representation of EEG channels on each sEMG channel. Sensitivity, specificity, and accuracy criteria were obtained for test dataset to evaluate the performance of task-related and non-task sEMG channels detection. Coupling values were significantly different between grand average of task-related compared to the non-task sEMG channels (Z = -6.33, p< 0.001, task-related median = 2.011, non-task median = 0.112). Strong coupling index was found even in single trial analysis. Sparse representation approach (best fitted model: SVM, Accuracy = 88.12%, Sensitivity = 83.85%, Specificity = 92.45%) outperformed CMC method (best fitted model: KNN, Accuracy = 50.83%, Sensitivity = 52.17%, Specificity = 49.47%). Sparse representation approach offers high performance to detect CMC for discerning the EMG channels involved in the contraction tasks and non-tasks.
- Open Access
- 15 November 2021
- Published by Springer Nature in BMC Cancer
- Vol. 21 (1) , 1-21
Prediction of anti-CD25 and 5-FU treatments efficacy for pancreatic cancer using a mathematical model
Background: Pancreatic ductal adenocarcinoma (PDAC) is a highly lethal disease with rising incidence and with 5-years overall survival of less than 8%. PDAC creates an immune-suppressive tumor microenvironment to escape immune-mediated eradication. Regulatory T (Treg) cells and myeloid-derived suppressor cells (MDSC) are critical components of the immune-suppressive tumor microenvironment. Shifting from tumor escape or tolerance to elimination is the major challenge in the treatment of PDAC. Results: In a mathematical model, we combine distinct treatment modalities for PDAC, including 5-FU chemotherapy and anti- CD25 immunotherapy to improve clinical outcome and therapeutic efficacy. To address and optimize 5-FU and anti- CD25 treatment (to suppress MDSCs and Tregs, respectively) schedule in-silico and simultaneously unravel the processes driving therapeutic responses, we designed an in vivo calibrated mathematical model of tumor-immune system (TIS) interactions. We designed a user-friendly graphical user interface (GUI) unit which is configurable for treatment timings to implement an in-silico clinical trial to test different timings of both 5-FU and anti- CD25 therapies. By optimizing combination regimens, we improved treatment efficacy. In-silico assessment of 5-FU and anti- CD25 combination therapy for PDAC significantly showed better treatment outcomes when compared to 5-FU and anti- CD25 therapies separately. Due to imprecise, missing, or incomplete experimental data, the kinetic parameters of the TIS model are uncertain that this can be captured by the fuzzy theorem. We have predicted the uncertainty band of cell/cytokines dynamics based on the parametric uncertainty, and we have shown the effect of the treatments on the displacement of the uncertainty band of the cells/cytokines. We performed global sensitivity analysis methods to identify the most influential kinetic parameters and simulate the effect of the perturbation on kinetic parameters on the dynamics of cells/cytokines. Conclusion: Our findings outline a rational approach to therapy optimization with meaningful consequences for how we effectively design treatment schedules (timing) to maximize their success, and how we treat PDAC with combined 5-FU and anti- CD25 therapies. Our data revealed that a synergistic combinatorial regimen targeting the Tregs and MDSCs in both crisp and fuzzy settings of model parameters can lead to tumor eradication.
- 15 November 2021
- Published by Springer Nature in BMC Cancer
- Vol. 21 (1) , 1-21
Open AccessPrediction of anti-CD25 and 5-FU treatments efficacy for pancreatic cancer using a mathematical model
Background: Pancreatic ductal adenocarcinoma (PDAC) is a highly lethal disease with rising incidence and with 5-years overall survival of less than 8%. PDAC creates an immune-suppressive tumor microenvironment to escape immune-mediated eradication. Regulatory T (Treg) cells and myeloid-derived suppressor cells (MDSC) are critical components of the immune-suppressive tumor microenvironment. Shifting from tumor escape or tolerance to elimination is the major challenge in the treatment of PDAC. Results: In a mathematical model, we combine distinct treatment modalities for PDAC, including 5-FU chemotherapy and anti- CD25 immunotherapy to improve clinical outcome and therapeutic efficacy. To address and optimize 5-FU and anti- CD25 treatment (to suppress MDSCs and Tregs, respectively) schedule in-silico and simultaneously unravel the processes driving therapeutic responses, we designed an in vivo calibrated mathematical model of tumor-immune system (TIS) interactions. We designed a user-friendly graphical user interface (GUI) unit which is configurable for treatment timings to implement an in-silico clinical trial to test different timings of both 5-FU and anti- CD25 therapies. By optimizing combination regimens, we improved treatment efficacy. In-silico assessment of 5-FU and anti- CD25 combination therapy for PDAC significantly showed better treatment outcomes when compared to 5-FU and anti- CD25 therapies separately. Due to imprecise, missing, or incomplete experimental data, the kinetic parameters of the TIS model are uncertain that this can be captured by the fuzzy theorem. We have predicted the uncertainty band of cell/cytokines dynamics based on the parametric uncertainty, and we have shown the effect of the treatments on the displacement of the uncertainty band of the cells/cytokines. We performed global sensitivity analysis methods to identify the most influential kinetic parameters and simulate the effect of the perturbation on kinetic parameters on the dynamics of cells/cytokines. Conclusion: Our findings outline a rational approach to therapy optimization with meaningful consequences for how we effectively design treatment schedules (timing) to maximize their success, and how we treat PDAC with combined 5-FU and anti- CD25 therapies. Our data revealed that a synergistic combinatorial regimen targeting the Tregs and MDSCs in both crisp and fuzzy settings of model parameters can lead to tumor eradication.
- 15 April 2021
- Published by Springer Nature in Current Genetics
- Vol. 67 (5) , 785-797
Dynamical analysis of the fission yeast cell cycle via Markov chain
The cell cycle is a complex network involved in the regulation of cell growth and proliferation. Intrinsic molecular noise in gene expression in the cell cycle network can generate fluctuations in protein concentration. How the cell cycle network maintains its robust transitions between cell cycle phases in the presence of these fluctuations remains unclear. To understand the complex and robust behavior of the cell cycle system in the presence of intrinsic noise, we developed a Markov model for the fission yeast cell cycle system. We quantified the effect of noise on gene and protein activity and on the probability of transition between different phases of the cell cycle. Our analysis shows how network perturbations decide the fate of the cell. Our model predicts that the cell cycle pathway (subsequent transitions from \({\text{G}}1 \to {\text{S}} \to {\text{G}}2 \to {\text{M}}\)) is the most robust and probable pathway among all possible trajectories in the cell cycle network. We performed a sensitivity analysis to find correlations between protein interaction weights and transition probabilities between cell cycle phases. The sensitivity analysis predicts how network perturbations affect the transition probability between different cell cycle phases and, consequently, affect different cell fates, thus, forming testable in vitro/in vivo hypotheses. Our simulation results agree with published experimental findings and reveal how noise in the cell cycle regulatory network can affect cell cycle progression.- 15 April 2021
- Published by Springer Nature in Current Genetics
- Vol. 67 (5) , 785-797
Dynamical analysis of the fission yeast cell cycle via Markov chain
The cell cycle is a complex network involved in the regulation of cell growth and proliferation. Intrinsic molecular noise in gene expression in the cell cycle network can generate fluctuations in protein concentration. How the cell cycle network maintains its robust transitions between cell cycle phases in the presence of these fluctuations remains unclear. To understand the complex and robust behavior of the cell cycle system in the presence of intrinsic noise, we developed a Markov model for the fission yeast cell cycle system. We quantified the effect of noise on gene and protein activity and on the probability of transition between different phases of the cell cycle. Our analysis shows how network perturbations decide the fate of the cell. Our model predicts that the cell cycle pathway (subsequent transitions from \({\text{G}}1 \to {\text{S}} \to {\text{G}}2 \to {\text{M}}\)) is the most robust and probable pathway among all possible trajectories in the cell cycle network. We performed a sensitivity analysis to find correlations between protein interaction weights and transition probabilities between cell cycle phases. The sensitivity analysis predicts how network perturbations affect the transition probability between different cell cycle phases and, consequently, affect different cell fates, thus, forming testable in vitro/in vivo hypotheses. Our simulation results agree with published experimental findings and reveal how noise in the cell cycle regulatory network can affect cell cycle progression.- Open Access
- 17 November 2020
- Published by Frontiers Media SA in Frontiers in Neuroscience
- Vol. 14
Toward New Modalities in VEP-Based BCI Applications Using Dynamical Stimuli: Introducing Quasi-Periodic and Chaotic VEP-Based BCI
Visual evoked potentials (VEPs) to periodic stimuli are commonly used in brain computer interfaces for their favorable properties such as high target identification accuracy, less training time, and low surrounding target interference. Conventional periodic stimuli can lead to subjective visual fatigue due to continuous and high contrast stimulation. In this study, we compared quasi-periodic and chaotic complex stimuli to common periodic stimuli for use with VEP-based brain computer interfaces (BCIs). Canonical correlation analysis (CCA) and coherence methods were used to evaluate the performance of the three stimulus groups. Subjective fatigue caused by the presented stimuli was evaluated by the Visual Analogue Scale (VAS). Using CCA with the M2 template approach, target identification accuracy was highest for the chaotic stimuli (M = 86.8, SE = 1.8) compared to the quasi-periodic (M = 78.1, SE = 2.6, p = 0.008) and periodic (M = 64.3, SE = 1.9, p = 0.0001) stimulus groups. The evaluation of fatigue rates revealed that the chaotic stimuli caused less fatigue compared to the quasi-periodic (p = 0.001) and periodic (p = 0.0001) stimulus groups. In addition, the quasi-periodic stimuli led to lower fatigue rates compared to the periodic stimuli (p = 0.011). We conclude that the target identification results were better for the chaotic group compared to the other two stimulus groups with CCA. In addition, the chaotic stimuli led to a less subjective visual fatigue compared to the periodic and quasi-periodic stimuli and can be suitable for designing new comfortable VEP-based BCIs.
- 17 November 2020
- Published by Frontiers Media SA in Frontiers in Neuroscience
- Vol. 14
Open AccessToward New Modalities in VEP-Based BCI Applications Using Dynamical Stimuli: Introducing Quasi-Periodic and Chaotic VEP-Based BCI
Visual evoked potentials (VEPs) to periodic stimuli are commonly used in brain computer interfaces for their favorable properties such as high target identification accuracy, less training time, and low surrounding target interference. Conventional periodic stimuli can lead to subjective visual fatigue due to continuous and high contrast stimulation. In this study, we compared quasi-periodic and chaotic complex stimuli to common periodic stimuli for use with VEP-based brain computer interfaces (BCIs). Canonical correlation analysis (CCA) and coherence methods were used to evaluate the performance of the three stimulus groups. Subjective fatigue caused by the presented stimuli was evaluated by the Visual Analogue Scale (VAS). Using CCA with the M2 template approach, target identification accuracy was highest for the chaotic stimuli (M = 86.8, SE = 1.8) compared to the quasi-periodic (M = 78.1, SE = 2.6, p = 0.008) and periodic (M = 64.3, SE = 1.9, p = 0.0001) stimulus groups. The evaluation of fatigue rates revealed that the chaotic stimuli caused less fatigue compared to the quasi-periodic (p = 0.001) and periodic (p = 0.0001) stimulus groups. In addition, the quasi-periodic stimuli led to lower fatigue rates compared to the periodic stimuli (p = 0.011). We conclude that the target identification results were better for the chaotic group compared to the other two stimulus groups with CCA. In addition, the chaotic stimuli led to a less subjective visual fatigue compared to the periodic and quasi-periodic stimuli and can be suitable for designing new comfortable VEP-based BCIs.