Publications

Preprints

D Klepl, F He*, M Wu, DJ Blackburn, PG Sarrigiannis, Cross-Frequency Multilayer Network Analysis with Bispectrum-based Functional Connectivity: A Study of Alzheimer’s Disease, bioRxiv, doi: https://doi.org/10.1101/2021.08.07.455499, 2022.

SR Gunawardena, PG Sarrigiannis, DJ Blackburn, F He*, Kernel-based Nonlinear Manifold Learning for EEG Channel Selection with Application to Alzheimer’s Disease, bioRxiv, doi: https://doi.org/10.1101/2021.10.15.464451, 2022.

Conference Papers

D Klepl, F He*, M Wu, DJ Blackburn, PG Sarrigiannis, Bispectrum-based Cross-frequency Functional Connectivity: Classification of Alzheimer’s disease, arXiv:2206.05354, IEEE 44th International Engineering in Medicine and Biology Conference (EMBC) 2022, Glasgow.

S. Goerttler, M. Wu, F. He, The Effect of Graph Frequencies on Dynamic Structures in Graph Signal Processing, IEEE Signal Processing in Medicine and Biology Symposium, 2022, [accepted version]

Recent Journal Papers

D Klepl, F He*, M Wu, DJ Blackburn, PG Sarrigiannis, EEG-based Graph Neural Network Classification of Alzheimer’s Disease: An Empirical Evaluation of Functional Connectivity Methods, IEEE Transactions on Neural Systems and Rehabilitation Engineering, 30, 2651-2660, 2022.

D Klepl, F He*, M Wu, DJ Blackburn, M De Marco, PG Sarrigiannis, Characterising Alzheimer’s Disease with EEG-based Energy Landscape Analysis, IEEE Journal of Biomedical and Health Informatics, 26(3), 992-1000, 2022. [preprint: arXiv] [front cover featured article][code]

M Foo, L Dony, F He, Data-driven dynamical modelling of a pathogen-infected plant gene regulatory network: a comparative analysis, BioSystems, 219:104732, 2022.

B Vasudeva, R Tian, DH, Wu, SA. James, HH Refai, L Ding, F He, Y Yang, Multi-Phase Locking Value: A Generalized Method for Determining Instantaneous Multi-frequency Phase Coupling, [preprint:arXiv], Biomedical Signal Processing and Control, 74(4):103492, 2022.

F He, Y Yang, Nonlinear System Identification of Neural Systems from Neurophysiological Signals, Neuroscience, 458, 213-228, 2021. preprint

IF Kurniawanad, T Asyhari, F He, Y Liu, Mobile computing and communications-driven fog-assisted disaster evacuation techniques for context-aware guidance support: A survey, Computer Communications, 179, 195-216, 2021.

E Tankhilevich, J Ish-Horowicz, T Hameed, E Roesch, I Kleijn, MPH Stumpf, F He, GpABC: a Julia package for approximate Bayesian computation with Gaussian process emulation, Bioinformatics, 36, 3286–3287, 2020. [Julia package]

L Dony, F He, MPH Stumpf, Parametric and non-parametric gradient matching for network inference: a comparison, BMC Bioinformatics, 20, 52, 2019. [code]

F He, MPH Stumpf, Quantifying Dynamic Regulation in Metabolic Pathways with Nonparametric Flux Inference, Biophysical Journal, 116, 2035-2046, 2019.

DJ Blackburn, PG Sarrigiannis, M Marco De, Y Zhao, A Venneri, S Lawrence, ZC Unwin, M Blyth, J Angel, K Baster, ID Wilkinson, SM Bell, F He, HL Wei, SA Billings, TFD Farrow, A Pilot Study Investigating a Novel Non-Linear Measure of Eyes Open versus Eyes Closed EEG Synchronization in People with Alzheimer’s Disease and Healthy Controls, Brain Science, 8(7), 134, 2018.

PG Sarrigiannis, Y Zhao, F He, SA Billings, K Baster, C Rittey, J Yianni, P Zis, H Wei, M Hadjivassiliou, R Grünewald, The cortical focus in childhood absence epilepsy; evidence from nonlinear analysis of scalp EEG recordings, Clinical Neurophysiology, 129(3), 602-617, 2018.

F He, PG Sarrigiannis, SA Billings, H Wei, J Rowe, C Romanowski, N Hoggard, M Hadjivassilliou, D Rao, R Grünewald, A Khan, J Yianni, Nonlinear interactions in the thalamocortical loop in essential tremor: a model-based frequency domain analysis, Neuroscience, 324, 377-389, 2016.

F He, E Murabito, HV Westerhoff, Synthetic biology and regulatory networks: where metabolic systems biology meets control engineering, Journal of The Royal Society Interface, 13(117), 2015.1046, 2016.

F He, HL Wei, SA Billings, Identification and frequency domain analysis of non-stationary and nonlinear systems using time-varying NARMAX models, International Journal of Systems Science, 46(11), 2087-2100, 2015.

F He, SA Billings, HL Wei, PG Sarrigiannis, A nonlinear causality measure in the frequency domain: Nonlinear partial directed coherence with applications to EEG, Journal of Neuroscience Methods, 225, 71-80, 2014.

HV Westerhoff, AN Brooks, E Simeonidis, R García-Contreras, F He, F C Boogerd, VJ Jackson, V Goncharuk, A Kolodkin, Macromolecular networks and intelligence in microorganisms, Frontiers in Microbiology 5, 379, 2014.

F He, HL Wei, SA Billings, PG Sarrigiannis, A nonlinear generalization of spectral granger causality, IEEE Transactions on Biomedical Engineering, 61 (6), 1693-1701, 2014.

F He, SA Billings, HL Wei, PG Sarrigiannis, Y Zhao, Spectral analysis for nonstationary and nonlinear systems: A discrete-time-model-based approach, IEEE Transactions on Biomedical Engineering, 60 (8), 2233-2241, 2013.

F He, V Fromion, HV Westerhoff, (Im) Perfect robustness and adaptation of metabolic networks subject to metabolic and gene-expression regulation: marrying control engineering with metabolic control analysis, BMC systems biology, 7(1),131, 2013.

Y Zhao, SA Billings, H Wei, F He, PG Sarrigiannis, A new NARX-based Granger linear and nonlinear casual influence detection method with applications to EEG data, Journal of Neuroscience Methods, 212(1), 79-86, 2013.