Publications | Computational Medicine Laboratory

Peer-Reviewed Journal and Conference Papers

[60] Alam, S., Khazaei, S., and Faghih, R. T. (2024). Unveiling productivity: The interplay of cognitive arousal and expressive typing in remote work. In PloS one, 2024. (Accepted)

[59] Khazaei, S., Amin, R., Tahir, M., and Faghih, R. T. (2024). Bayesian inference of hidden cognitive performance and arousal states in presence of music. IEEE Open Journal of Engineering in Medicine and Biology, 2024. (Accepted)

[58] Wickramasuriya, D.S., Khazaei, S., Kiani, R. and Faghih, R.T., 2023. A Bayesian Filtering Approach for Tracking Sympathetic Arousal and Cortisol-Related Energy From Marked Point Process and Continuous-Valued Observations. IEEE Access, 11, pp.137204-137247.

[57] Alam, S., Amin, M.R. and Faghih, R.T., 2023. Sparse Multichannel Decomposition of Electrodermal Activity With Physiological Priors. IEEE Open Journal of Engineering in Medicine and Biology, 4, pp.234-250.

[56] Fekri Azgomi, H., F. Branco, L.R., Amin, M.R., Khazaei, S. and Faghih, R.T., 2023. Regulation of brain cognitive states through auditory, gustatory, and olfactory stimulation with wearable monitoring. Scientific reports, 13(1), p.12399.

[55] Raju, V., Gibbison, B., Hajihossainlou, B., Klerman, E.B. and Faghih, R.T., 2023, July. Sparse Deconvolution and Causality Analysis of Inflammatory Markers During Cardiac Surgery. In 2023 45th Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC) (pp. 1-7). IEEE.

[54] Raju, V., Gibbison, B., Klerman, E.B. and Faghih, R.T., 2023, July. Characterizing Alterations in Cortisol Secretion During Cardiac Surgery. In 2023 45th Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC) (pp. 1-6). IEEE.

[53] Reddy, R., Khazaei, S. and Faghih, R.T., 2023, July. A Point-Process Approach for Tracking Valence using a Respiration Belt. In 2023 45th Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC) (pp. 1-7). IEEE.

[52] Reddy, R., Guo, Y., Raju, V. and Faghih, R.T., 2023, July. Characterization of Leptin Secretion in Premenopausal Obese Women Treated with Bromocriptine. In 2023 45th Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC) (pp. 1-6). IEEE.

[51] Khazaei, S., Amin, M.R. and Faghih, R.T., 2022, October. Decoding a Neurofeedback-Modulated Performance State in Presence of a Time-Varying Process Noise Variance. In 2022 56th Asilomar Conference on Signals, Systems, and Computers (pp. 990-996). IEEE.

[50] Amin, M.R. and Faghih R.T., “Physiological characterization of electrodermal activity enables scalable near real-time autonomic nervous system activation inference,” PLOS Computational Biology, 2022.

[49] Fekri Azgomi H, and Faghih R.T., “Enhancement of Closed-Loop Cognitive Stress Regulation Using Supervised Control Architectures,” IEEE open journal of engineering in medicine and biology 2022. (Supplementary Info).

[48] Branco LRF, Ehteshami A, Fekri Azgomi H, and Faghih R.T., “Closed-Loop Tracking and Regulation of Emotional Valence State From Facial Electromyogram Measurements,” Frontiers in computational neuroscience, 2022.

[47] Wickramasuriya D.S., Amin M.R., and Faghih R.T., “A Wearable Exam Stress Dataset for Predicting Grades using Physiological Signals,” 2022 IEEE Healthcare Innovations and Point of Care Technologies (HI-POCT).

[46] Amin, M.R, Pednekar D, Fekri Azgomi H, Van Wietmarschen H, Aschbacher K, and Faghih, R.T., “Sparse System Identification of Leptin Dynamics in Women With Obesity,” Frontiers in endocrinology, 2022.

[45] McConnell, G.C., Santaniello, S., Gale, J.T., Faghih, R.T., Kemere, C., Han, M., Hilliard, J.D., “Towards the Next Generation of Deep Brain Stimulation Therapies: Technological Advancements, Computational Methods, and New Targets,” Frontiers in Neuroscience, 2021.

[44] Khazaei, S., Amin, M.R, and Faghih, R.T., “Decoding a Neurofeedback-Modulated Cognitive Arousal State to Investigate Performance Regulation by the Yerkes-Dodson Law,” The Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2021.

[43] Yaghmour, A., Amin, M.R, and Faghih, R.T., “Decoding a Music-Modulated Cognitive Arousal State using Electrodermal Activity and Functional Near-infrared Spectroscopy Measurements,” The Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2021.

[42] Amin, M.R, Tahir, M., and Faghih, R.T., “A State-Space Investigation of Impact of Music on Cognitive Performance during a Working Memory Experiment,” The Annual International Conference of the IEEE Engineering in Medicine and Biology Society,2021.

[41] Steel A. G, Parekh S,Fekri Azgomi H, Badri Ahmadi M, Craik A, Pati S, Francis J. T.Contreras-Vidal J.L., and Faghih R.T., “A Mixed Filtering Approach for Real-Time Seizure State Tracking Using Multi-Channel Electroencephalography Data,” IEEE Transactions on Neural Systems and Rehabilitation Engineering 2021.(Supplementary Info)

[40] Fekri Azgomi H, Hahn J-O, and Faghih R.T., “Closed-Loop Fuzzy Energy Regulation in Patients With Hypercortisolism via Inhibitory and Excitatory Intermittent Actuation,” Frontiers in Neuroscience, 2021. (Supplementary Info)

[39] Fekri Azgomi H, Cajigas I, and Faghih R.T., “Closed-Loop Cognitive Stress Regulation Using Fuzzy Control in Wearable-Machine Interface Architectures,” IEEE Access, 2021.

[38] Casile A, Faghih R.T., Brown E. N., “Robust point-process Granger causality analysis in presence of exogenous temporal modulations and trial-by-trial variability in spike trains,” PLoS computational biology, 2021.

[37] Amin, M.R. and Faghih, R.T., 2020. “Identification of Sympathetic Nervous System Activation from Skin Conductance: A Sparse Decomposition Approach with Physiological Priors,” IEEE Transactions on Biomedical Engineering, 2020. (Supplementary Info)

[36] Wickramasuriya D.S., and Faghih R.T., “A Marked Point Process Filtering Approach for Tracking Sympathetic Arousal from Skin Conductance,” IEEE Access, 2020.

[35] Seet M. S., Amin M. R., Abbasi N. I., Hamano J., Bezerianos A., Faghih R.T., Thakor N. V., Dragomir A., “Olfactory-induced Positive Affect and Autonomous Response as a Function of Hedonic and Intensity Attributes of Fragrances,” The Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2020.

[34] Genty J. X., Amin M.R., Shaw N. D., Klerman E. B., and Faghih R.T., “Sparse Deconvolution of Pulsatile Growth Hormone Secretion in Children,” IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2021. (Supplementary Info)

[33] Amin M.R., and Faghih R.T., “Robust Inference of Autonomic Nervous System Activation using Skin Conductance Measurements: A Multi-Channel Sparse System Identification Approach,” IEEE Access, 2019.

[32] Pednekar D, Amin M.R., Fekri Azgomi H, Aschbacher K, J. Crofford L, and Faghih R.T., “Characterization of Cortisol Dysregulation in Fibromyalgia and Chronic Fatigue Syndromes: A State-Space Approach,” IEEE Transactions on Biomedical Engineering, 2020. (supplementary info)

[31] Wickramasuriya, D.S., and Faghih R.T., “A Mixed Filter Algorithm for Sympathetic Arousal Tracking from Skin Conductance and Heart Rate Measurements in Pavlovian Fear Conditioning,” PLOS ONE, 2020.

[30] Fekri Azgomi H, and Faghih R.T., “A Wearable Brain Machine Interface Architecture for Regulation of Energy in Hypercortisolism,” 53rd Asilomar Conference on Signals, Systems, and Computers,Pacific Grove, CA, 2019.

[29] Badri Ahmadi M, Craik A, Fekri Azgomi H, Francis J. T.Contreras-Vidal J.L., and Faghih R.T., “Real-Time Seizure State Tracking using Two Channels: A Mixed-Filter Approach,” IEEE Asilomar Conference on Signals, Systems and Computers 2019.

[28] Yadav T, Atique Md M, Fekri Azgomi H, Francis J. T., and Faghih R.T., “Emotional Valence Tracking and Classification via State-Space Analysis of Facial Electromyography,” IEEE Asilomar Conference on Signals, Systems and Computers 2019.

[27] Ravindran A.S., Nakagome S., Wickramasuriya D.S., Contreras-Vidal J.L., and Faghih R.T., “Emotion Recognition by Point Process Characterization of Heartbeat Dynamics,” the IEEE-EMB Special Topics Conference on Healthcare Innovations and Point-of-Care Technologies, Bethesda, MD, 2019.

[26] Wickramasuriya D.S., Tessmer M.K. and Faghih R.T., “Facial Expression-Based Emotion Classification using Electrocardiogram and Respiration Signals,” the IEEE-EMB Special Topics Conference on Healthcare Innovations and Point-of-Care Technologies, Bethesda, MD, 2019.

[25] Wickramasuriya D.S., Amin M.R.. andFaghih R.T., “Skin Conductance as a Viable Alternative for Closing the Deep Brain Stimulation Loop in Neuropsychiatric Disorders,” Frontiers in Neuroscience, 2019.

[24] Taghvafard, H., Cao, M., Kawano, Y. and Faghih, R.T., 2019. “Design of Intermittent Control for Cortisol Secretion under Time-Varying Demand and Holding Cost Constraints,” IEEE Transactions on Biomedical Engineering, 2019.

[23] Fekri Azgomi H, Wickramasuriya D.S., and Faghih R.T., “State-Space Modeling and Fuzzy Feedback Control of Cognitive Stress,” The Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Berlin, Germany, 2019.

[22] Pednekar D, Amin M.R., Fekri Azgomi H, Aschbacher K, J. Crofford L, and Faghih R.T., “A System Theoretic Investigation of Cortisol Dysregulation in Fibromyalgia Patients with Chronic Fatigue,” The Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Berlin, Germany, 2019.

[21] Parshi S, Amin M.R., Fekri Azgomi H, and Faghih R.T., “Mental Workload Classification via Hierarchical Latent Dictionary Learning: A Functional Near Infrared Spectroscopy Study,” IEEE-EMBS International Conference on Biomedical and Health Informatics, Chicago, IL, 2019.

[20] Wickramasuriya D.S., and Faghih R.T., “A Cortisol-Based Energy Decoder for Investigation of Fatigue in Hypercortisolism,” The Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Berlin, Germany, 2019.

[19] Wickramasuriya D.S., andFaghih R.T., “A Novel Filter for Tracking Real-World Cognitive Stress using Multi-Time-Scale Point Process Observations,” The Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Berlin, Germany, 2019.

[18] Wickramasuriya D.S., and Faghih R.T., “A Bayesian Filtering Approach for Tracking Arousal from Binary and Continuous Skin Conductance Features,” IEEE Transactions on Biomedical Engineering, 2019. (supplementary info)

[17] Amin M.R., and Faghih R.T., “Tonic and Phasic Decomposition of Skin Conductance Data: A Generalized-Cross-Validation-Based Block Coordinate Descent Approach,” The Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Berlin, Germany, 2019.

[16] Amin M.R., and Faghih R.T., “Sparse Deconvolution of Electrodermal Activity via Continuous-Time System Identification,” IEEE Transactions on Biomedical Engineering, 2019. (supplementary_info)

[15] Amin M.R., and Faghih R.T., “Inferring Autonomic Nervous System Stimulation from Hand and Foot Skin Conductance Measurements,” 52nd Asilomar Conference on Signals, Systems, and Computers, Pacific Grove, CA, 2018.

[14] Wickramasuriya D.S., Qi C., and Faghih R.T., “A State-Space Approach for Detecting Stress from Electrodermal Activity,” the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Honolulu, HI, 2018. [Video]

[13] Faghih, R.T.“From Physiological Signals to Pulsatile Dynamics: A Sparse System Identification Approach,” In Dynamic Neuroscience, p. 239-265. Springer, Cham, 2018.

[12] Vargas I., Vgontzas A., Abelson J.L., Faghih R.T., Morales K.H., Perlis M.L., “Altered Ultradian Cortisol Rhythmicity as a Potential Neurobiologic Substrate for Chronic Insomnia,” Sleep Medicine Reviews, 2018.

[11] Wickramasuriya D.S., and Faghih R.T., “Online and Offline Anger Detection via Electromyography Analysis,” the IEEE-NIH Special Topics Conference on Healthcare Innovations and Point-of-Care Technologies, Bethesda, MD, 2017. [PDF] [Poster]

[10] Faghih R.T., Styer A.K., and Brown E.N., “Automated Ovarian Follicular Monitoring: A Novel Real-time Approach,” the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Seogwipo, South Korea, p. 632-635, 2017.

[9] Faghih R.T., Dahleh M.A., Adler G., Klerman E., and Brown E.N., “Quantifying Pituitary Adrenal Dynamics: Deconvolution of Concurrent Cortisol and Adrenocorticotropic Hormone Data by Compressed Sensing,” IEEE Transactions on Biomedical Engineering, 2015. [supplementary information]

[8] Faghih R.T., Dahleh M.A., and Brown E.N., “An Optimization Formulation for Characterization of Pulsatile Cortisol Secretion,” Frontiers in Neuroscience,2015(Featured on Frontiers homepage from August 27, 2015 to September 2, 2015).

[7] Faghih R.T., Stokes, P., Marin M.F., Zsido R., Zorowitz S., Rosenbaum B., Song H., Milad R., Dougherty D., Eskandar E., Widge A., Brown E.N., Barbieri R., “Characterization of Fear Conditioning and Fear Extinction by Analysis of Electrodermal Activity,” the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Milan, Italy, 2015.

[6] Deng X., Faghih R.T., Barbieri R., Paulk A.C., Asaad W., Brown E.N., Dougherty D., Widge A., Eskandar E., Eden U, “Estimating a Dynamic State to Relate Neural Spiking Activity to Behavioral Signals during Cognitive Tasks,” the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Milan, Italy, p.7808-7813, 2015.

[5] Faghih R.T., Dahleh M.A., Adler G., Klerman E., and Brown E.N., “Deconvolution of Serum Cortisol Levels by Using Compressed Sensing,”PLoS ONE 9(1): e85204. doi:10.1371/journal.pone.0085204, January 2014.

[4] Faghih R.T., Savla K., Dahleh M.A., and Brown E.N., “Broad Range of Neural Dynamics from a Time-Varying FitzHugh-Nagumo Model and Its Spiking Threshold Estimation,” IEEE Transactions on Biomedical Engineering, 2012. [Example Simulink Block]

[3] Faghih R.T., Savla K., Dahleh M.A., and Brown E.N., “A Feedback Control Model for Cortisol Secretion.” In Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Boston, MA, p.716-719, 2011.

[2] Faghih R.T., Savla K., Dahleh M.A., and Brown E.N., “The FitzHugh-Nagumo Model: Firing Modes with Time Varying Parameters and Parameter Estimation,” In Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Buenos Aires, Argentina, p. 4116-4119, 2010.

[1] Antonsen T.M., Faghih R.T., Girvan M., Ott E., and Platig J., “External Periodic Driving of Large Systems of Globally Coupled Phase Oscillators,” Chaos, An Interdisciplinary Journal of Nonlinear Science. 2008.

Patents

– Faghih, R. T., R. Reddy, and S. Khazaei. A system and method for estimating emotional valence based on measurements of respiration, 2023. U. S. Provisional Patent App 63/514,825.

– Faghih, R. T. and S. Khazaei. Systems and methods for estimating interoceptive awareness state using eye-tracking measurements, 2023. U. S. Provisional Patent App 63/584,814.

– Faghih, R.T., Wickramasuriya, D.S. and Amin, M.R., University of Houston System, 2022. Systems and methods for estimating a nervous system state based on measurement of a physiological condition. U. S. Patent App 17/514,129

– Faghih R.T., Wearable Machine Interface System for Tracking and Controlling Mental Stress Related Brain Dynamics using Wrist-Worn Wearable Devices, 2018. US Patent App. 62/614,070.

– Faghih R.T., Styer A. K., Brown, E. N. “System and Method for Automated Ovarian Follicular Monitoring,” International Patent Application No.: PCT/US2017/041111.

– Faghih R.T., Brown E.N., Dahleh M.A. ““System and Method for Neuroendocrine Control,” U.S. Patent Application No. 15/170,900.