Select publications
2025
Daniel Zepeda, Yucheng Li, and Yi Xue. Scattering correction through Fourier-domain intensity coupling in two-photon microscopy (2P-FOCUS), Photon. Res. 13, 845-864 (2025). https://doi.org/10.1364/PRJ.544387
Young PR, Hong K, Winslow EJ, Sagastume GK, Battraw MA, Whittle RS, Schofield JS. The effects of limb position and grasped load on hand gesture classification using electromyography, force myography, and their combination. PLoS One. 2025 Apr 10;20(4):e0321319. https://doi.org/10.1371/journal.pone.0321319
Kim H, Girardi G, Pickle A, Kim TS, Seker E. Microfluidic tools to model, monitor, and modulate the gut-brain axis. Biomicrofluidics. 2025 Mar 7;19(2):021301. https://doi.org/10.1063/5.0253041
Chandra S, Sharma S, Chaudhuri R, Fiete I. Episodic and associative memory from spatial scaffolds in the hippocampus. Nature. 2025 Feb;638(8051):739-751. https://doi.org/10.1038/s41586-024-08392-y
2024
Megan C. Shyr, Sanjay S. Joshi; A Case Study of the Validity of Web-based Visuomotor Rotation Experiments. J Cogn Neurosci 2024; 36 (1): 71–94. https://doi.org/10.1162/jocn_a_02080
Battraw MA, Fitzgerald J, Winslow EJ, James MA, Bagley AM, Joiner WM, Schofield JS. Surface electromyography evaluation for decoding hand motor intent in children with congenital upper limb deficiency. Sci Rep. 2024 Dec 30;14(1):31741. https://doi.org/10.1038/s41598-024-82519-z
Kim H, Le B, Goshi N, Zhu K, Grodzki AC, Lein PJ, Zhao M, Seker E. Primary cortical cell tri-culture to study effects of amyloid-β on microglia function and neuroinflammatory response. J Alzheimers Dis. 2024 Dec;102(3):730-741. https://doi.org/10.1177/13872877241291142
Singer-Clark T, Hou X, Card NS, Wairagkar M, Iacobacci C, Peracha H, Hochberg LR, Stavisky SD, Brandman DM. Speech motor cortex enables BCI cursor control and click. bioRxiv [Preprint]. 2024 Nov 22:2024.11.12.623096. https://doi.org/10.1101/2024.11.12.623096
Wairagkar M, Card NS, Singer-Clark T, Hou X, Iacobacci C, Hochberg LR, Brandman DM, Stavisky SD. An instantaneous voice synthesis neuroprosthesis. bioRxiv [Preprint]. 2024 Sep 20:2024.08.14.607690. doi: 10.1101/2024.08.14.607690
Zhang, K., Tang, S., Zhu, V. et al. An end-to-end recurrent compressed sensing method to denoise, detect and demix calcium imaging data. Nat Mach Intell 6, 1106–1118 (2024). https://doi.org/10.1038/s42256-024-00892-w
Zheng, J., Yebra, M., Schjetnan, A.G.P. et al. Theta phase precession supports memory formation and retrieval of naturalistic experience in humans. Nat Hum Behav (2024). https://doi.org/10.1038/s41562-024-01983-9
Yunyang Li, Shu Guo, Ben Mattison, Junjie Hu, Kwun Nok Mimi Man, and Weijian Yang, High-speed two-photon microscopy with adaptive line-excitation, Optica 11, 1138-1145 (2024) (published: Aug 15) https://doi.org/10.1364/OPTICA.529930
Card NS, Wairagkar M, Iacobacci C, Hou X, Singer-Clark T, Willett FR, Kunz EM, Fan C, Nia MV, Deo DR, Srinivasan A, Choi EY, Glasser MF, Hochberg LR, Henderson JM, Shahlaie K, Brandman DM, Stavisky SD. An accurate and rapidly calibrating speech neuroprosthesis. N Engl J Med (August 14, 2024);391:609-618. https://doi.org/10.1056/NEJMoa2314132
Fitzgerald JJ, Zhou W, Chase SM, Joiner WM. Dissociating the Influence of Limb Posture and Visual Feedback Shifts on the Adaptation to Novel Movement Dynamics. Neuroscience. 2024 Jun 21;549:24-41. https://doi.org/10.1016/j.neuroscience.2024.02.033
Lin, D.J., Backus, D., Chakraborty, S. et al. Transforming modeling in neurorehabilitation: clinical insights for personalized rehabilitation. J NeuroEngineering Rehabil 21, 18 (2024). https://doi.org/10.1186/s12984-024-01309-w
Pedersen NP, Castillo-Astorga R. Interfering with sleep apnea. Bioelectron Med 10, 5 (2024). https://doi.org/10.1186/s42234-023-00139-w
Jessica A. Korte, Alyssa Weakley, Kareelynn Donjuan Fernandez, Wilsaan M. Joiner, Audrey P. Fan; Neural Underpinnings of Learning in Dementia Populations: A Review of Motor Learning Studies Combined with Neuroimaging. J Cogn Neurosci 2024; 36 (5): 734–755. https://doi.org/10.1162/jocn_a_02116
Hong K, Kanapskyte A, Gowda HT, Joiner WM, Miller LM, Robinson, SK. The Influence of Haptic Feedback and Visual Information on Multi-Limb Coordination, 2024 16th International Conference on Human System Interaction (HSI), Paris, France, 2024, pp. 1-6, https://doi.org/10.1109/HSI61632.2024.10613591
Xue, Y., Boivin, J.R., Wadduwage, D.N. et al. Multiline orthogonal scanning temporal focusing (mosTF) microscopy for scattering reduction in in vivo brain imaging. Sci Rep 14, 10954 (2024). https://doi.org/10.1038/s41598-024-57208-6
Erickson, M. A., Boudewyn, M. A., Winsler, K., Li, C., Barch, D. M., Carter, C. S., Frank, M. J., MacDonald III, A. W., Ragland, J. D., Silverstein, S. M., Yonelinas, A. P., & Luck, S. J. (2024). Dysfunctional alpha modulation as a mechanism of working memory impairment in serious mental illness. Biological Psychiatry: Cognitive Neuroscience and Neuroimaging, 9, 1271-1280. https://doi.org/10.1016/j.bpsc.2024.07.022
2023
Siegel, JR, Battraw, MA, Winslow, EJ, James, MA, Joiner, WM, Schofield, JS. Review and Critique of Current Testing Protocols for Upper-Limb Prostheses: A Call for Standardization Amidst Rapid Technological Advancements, Frontiers in Robotics and AI.
Sec. Biomedical Robotics, Volume 10 – 2023, https://doi.org/10.3389/frobt.2023.1292632
Liu Q, Contreras A, Afaq MS, Yang W, Hsu DK, Russell M, Lyeth B, Zanto TP, Zhao M. Intensity-dependent gamma electrical stimulation regulates microglial activation, reduces beta-amyloid load, and facilitates memory in a mouse model of Alzheimer's disease. Cell Biosci. 2023 Jul 28;13(1):138. doi: 10.1186/s13578-023-01085-5. PMID: 37507776; PMCID: PMC10386209.
Coughlin B, Muñoz W, Kfir Y, Young MJ, Meszéna D, Jamali M, Caprara I, Hardstone R, Khanna A, Mustroph ML, Trautmann EM, Windolf C, Varol E, Soper DJ, Stavisky SD, Welkenhuysen M, Dutta B, Shenoy KV, Hochberg LR, Mark Richardson R, Williams ZM, Cash SS, Paulk AC. Modified Neuropixels probes for recording human neurophysiology in the operating room. Nat Protoc. 2023 Oct;18(10):2927-2953. doi: 10.1038/s41596-023-00871-2. Epub 2023 Sep 11. PMID: 37697108.
Toprani S, Durand DM. Mechanisms of Neurostimulation for Epilepsy. Epilepsy Curr. 2023 Oct 15;23(5):298-302. doi: 10.1177/15357597231191887. PMID: 37901784; PMCID: PMC10601041.
Berndt A, Cai D, Cohen A, Juarez B, Iglesias JT, Xiong H, Qin Z, Tian L, Slesinger PA. Current Status and Future Strategies for Advancing Functional Circuit Mapping In Vivo. J Neurosci. 2023 Nov 8;43(45):7587-7598. doi: 10.1523/JNEUROSCI.1391-23.2023. PMID: 37940594; PMCID: PMC10634581.
Lee QN, Chen JE, Wheeler GJ, Fan AP. Characterizing systemic physiological effects on the blood oxygen level dependent signal of resting-state fMRI in time-frequency space using wavelets. Hum Brain Mapp. 2023 Nov 11. doi: 10.1002/hbm.26533. Epub ahead of print. PMID: 37950750
Banks CL, Patten C. Development of an assessment of bilateral locomotor efficacy for individuals post-stroke. Gait & Posture. Volume 103, June 2023. https://doi.org/10.1016/j.gaitpost.2023.05.012
Girardi G, Zumpano D, Goshi N, Raybould H, Seker E. Cultured Vagal Afferent Neurons as Sensors for Intestinal Effector Molecules. Biosensors. Published 31 May 2023. https://doi.org/10.3390/bios13060601
Goshi, N.; Kim, H.; Girardi, G.; Gardner, A.; Seker, E. Electrophysiological Activity of Primary Cortical Neuron-Glia Mixed Cultures. Cells 2023, 12, 821. https://doi.org/10.3390/cells12050821
Nandakumar B, Blumenthal GH, Disse GD, Desmond PC, Ebinu JO, Ricard J, Bethea JR, Moxon KA. Exercise therapy guides cortical reorganization after midthoracic spinal contusion to enhance control of lower thoracic muscles, supporting functional recovery. Experimental Neurology, Volume 364, June 2023, https://doi.org/10.1016/j.expneurol.2023.114394
Johnson, E.L., Lin, J.J., King-Stephens, D. et al. A rapid theta network mechanism for flexible information encoding. Nat Commun 14, 2872 (2023). https://doi.org/10.1038/s41467-023-38574-7
Srivastava, S., Seamon, B.A., Patten, C. et al. Variation of body weight supported treadmill training parameters during a single session can modulate muscle activity patterns in post-stroke gait. Exp Brain Res (2023). https://doi.org/10.1007/s00221-023-06551-7
Veronica Ahumada-Newhart, Taffeta S. Wood, Erin R. Taylor, Francesca O. Johnson, Siena Saltzen, and Sanjay S. Joshi. 2023. Study of Telerobot Personalization for Children: Exploring Qualitative Coding of Artwork. In Companion of the 2023 ACM/IEEE International Conference on Human-Robot Interaction (HRI '23). Association for Computing Machinery, New York, NY, USA, 536–539. https://doi.org/10.1145/3568294.3580142
M. Cai, K. C. Zhou, Y. Xue, and L. Waller, Computational Wavefront Shaping with Epi-mode 3D Refractive Index Microscopy, in Optica Imaging Congress (3D, COSI, DH, FLatOptics, IS, pcAOP), Technical Digest Series (Optica Publishing Group, 2023), paper CW4B.5. https://doi.org/10.1364/COSI.2023.CW4B.5
2022
Disse, Gregory and Nandakumar, Bharadwaj and Pauzin, Francois Philippe and Blumenthal, Gary Howard and Kong, Zhaodan and Ditterich, Jochen and Moxon, Karen Anne, Neural Ensemble Dynamics in Trunk and Hindlimb Sensorimotor Cortex Encode for the Control of Postural Stability. Cell Reports, ISSN: 2211-1247, Vol: 42, Issue: 4, Page: 112347 (2023). http://dx.doi.org/10.2139/ssrn.4265015
Battraw MA, Young PR, Joiner WM, Schofield JS. A multiarticulate pediatric prosthetic hand for clinical and research applications. Front Robot AI. 2022 Oct 28;9:1000159. https://doi.org/10.3389/frobt.2022.1000159
Zhou W, Kruse EA, Brower R, North R, Joiner WM. Motion State-Dependent Motor Learning Based on Explicit Visual Feedback Is Quickly Recalled, But Is Less Stable Than Adaptation to Physical Perturbations. Journal of Neurophysiology. 2022 Sep. https://doi.org/10.1152/jn.00520.2021
Goshi N, Girardi G, da Costa Souza F, Gardner A, Lein PJ, Seker E. Influence of Microchannel Geometry on Device Performance and Electrophysiological Recording Fidelity During Long-term Studies of Connected Neural Populations. Lab on a chip. 2022 Sep. https://doi.org/10.1039/D2LC00683A
Battraw MA, Young PR, Welner ME, Joiner WM and Schofield JS. Characterizing Pediatric Hand Grasps During Activities of Daily Living to Inform Robotic Rehabilitation and Assistive Technologies. 2022 International Conference on Rehabilitation Robotics (ICORR), 2022, pp. 1-6, https://doi.org/10.1109/ICORR55369.2022.9896512
Patwardhan S, Schofield J, Joiner WM and Sikdar S. Sonomyography Shows Feasibility as a Tool to Quantify Joint Movement at the Muscle Level. 2022 International Conference on Rehabilitation Robotics (ICORR), 2022, pp. 1-5, https://doi.org/10.1109/ICORR55369.2022.9896582
Corina DP, Coffey-Corina S, Pierotti E, Bormann B, LaMarr T, Lawyer L, Backer KC, Miller LM. Electrophysiological Examination of Ambient Speech Processing in Children With Cochlear Implants. Journal of Speech, Language, and Hearing Research. 2022 Sep. https://doi.org/10.1044/2022_JSLHR-22-00004
Zheng Y, Liu XL, Nishiyama S, Ranganath C, O’Reilly RC. Correcting the Hebbian Mistake: Toward a Fully Error-driven Hippocampus. PLOS Computational Biology. 2022 Oct. https://doi.org/10.1371/journal.pcbi.1010589
Riazati S, McGuirk TE, Perry ES, Sihanath WB, Patten C. Absolute Reliability of Gait Parameters Acquired With Markerless Motion Capture in Living Domains. Front Hum Neurosci. 2022 Jun 16;16:867474. https://doi.org/10.3389/fnhum.2022.867474
McGuirk TE, Perry ES, Sihanath WB, Riazati S, Patten C. Feasibility of Markerless Motion Capture for Three-Dimensional Gait Assessment in Community Settings. Frontiers in Human Neuroscience. 2022 Jun 16;16:867485. https://doi.org/10.3389/fnhum.2022.867485
Young DR, Banks CL, McGuirk TE et al. Evidence for shared neural information between muscle synergies and corticospinal efficacy. Sci Rep 12, 8953 (2022). https://doi.org/10.1038/s41598-022-12225-1
Moxon K., Kong Z., Ditterich J. (2022) Brain-Machine Interfaces: From Restoring Sensorimotor Control to Augmenting Cognition. In: Thakor N.V. (eds) Handbook of Neuroengineering. Springer, Singapore. https://doi.org/10.1007/978-981-15-2848-4_36-1
Fedyk M, Dewar B, Jurkovic L, Chevrier S, Kitto S, Rodriguez R, Saginur R, Dowlatshahi D, Fahed R, Shamy M. How are randomized clinical trials ethically justified? A systematic scoping review and thematic analysis of reasons that ethically justify randomized clinical trials. Journal of Clinical Epidemiology, Volume 147, 2022, https://doi.org/10.1016/j.jclinepi.2022.04.005
Bales G, Kong Z. Neurophysiological and Behavioral Differences in Human-Multiagent Tasks: An EEG Network Perspective. ACM Transactions on Human-Robot Interaction, Vol. 11, Issue 4 (2022) https://doi.org/10.1145/3527928
O’Meara, S., Robinson, S., Joshi, S. (2022). Pilot Study for Myoelectric Control of a Supernumerary Robot During a Coordination Task. In: Kurosu, M. (eds) Human-Computer Interaction. Technological Innovation. HCII 2022. Lecture Notes in Computer Science, vol 13303. Springer, Cham. https://doi.org/10.1007/978-3-031-05409-9_38
2021
E.J. Beier, S. Chantavarin, G. Rehrig, F. Ferreira, L.M. Miller (2021). Cortical Tracking of Speech: Toward Collaboration between the Fields of Signal and Sentence Processing. Journal of Cognitive Neuroscience. 2021 Apr; 33(4):574-593. https://doi.org/10.1162/jocn_a_01676
G.H. Blumenthal, B. Nandakumar, A.K. Schnider, M.R. Detloff, J. Ricard, J.R. Bethea, K.A. Moxon, (2021). Modelling at-level allodynia after mid-thoracic contusion in the rat. Eur. J. Pain, 2021 Apr;25(4):801-816. https://doi.org/10.1002/ejp.1711 . Epub 2021 Jan 25.
Q.A. Boser, M.R. Dawson, J.S. Schofield, G.Y. Dziwenko, J.S. Hebert (2021). Defining the design requirements for an assistive powered hand exoskeleton: A pilot explorative interview study and case series. Prosthetics and Orthotics International. 2021 Apr 1; 45(2):161-169. https://doi.org/10.1177/0309364620963943
R. De Kock, W. Zhou, W.M. Joiner, M. Wiener, (2021). Slowing the body slows down time perception. eLife 2021;10:e63607. https://doi.org/10.7554/eLife.63607
S. Herd, K. Krueger, A. Nair, J. Mollick, R. O’Reilly (2021). Neural mechanisms of human decision-making. Cognitive, Affective, & Behavioral Neuroscience, 21, 35–57 (2021). https://doi.org/10.3758/s13415-020-00842-0
H. Kang, R. Auksztulewicz, H. An, N.A. Chacra, M.L. Sutter (2021). Neural correlates of auditory pattern learning in the auditory cortex. Frontiers in Neuroscience, 15 March 2021 | https://doi.org/10.3389/fnins.2021.610978
G. Li, M.S. Shourijeh, C. Patten, B.J. Fregly (2021). How Well Do Commonly Used Co-contraction Indices Approximate Lower Limb Joint Stiffness Trends During Gait for Individuals Post-stroke? Frontiers in Bioengineering and Biotechnology, 8, 588908, 07 January 2021 | https://doi.org/10.3389/fbioe.2020.588908
J.L. Mohn, J.D. Downer, K.N. O’Connor, J.S. Johnson, M.L. Sutter (2021). Choice-related activity and neural encoding in primary auditory cortex and lateral belt during feature selective attention. Journal of Neurophysiology, 31 MAR 2021, https://doi.org/10.1152/jn.00406.2020
J.A. Mollick, L.J. Chang, A. Krishnan, T.E. Hazy, K.A. Krueger, G.K.W. Frank, T.D. Wager, R.C. O’Reilly, (2021). The neural correlates of cued reward omission. Frontiers in Human Neuroscience, 11 February 2021 | https://doi.org/10.3389/fnhum.2021.615313
S. O’Meara, J. Karasinski, C. Miller, S. Joshi & S. Robinson, (2021). Effects of augmented feedback and motor learning adaptation on human-automation interaction factors. AIAA Journal of Aerospace Information Systems, https://doi.org/10.2514/1.I010915
C.R. Rivero, J. Ditterich, (2021). A user-friendly algorithm for adaptive closed-loop phase-locked stimulation. Journal of Neuroscience Methods, Vol. 347:108965. https://doi.org/10.1016/j.jneumeth.2020.108965
J.S. Schofield, M.A. Battraw, A.S. Parker, P.M. Pilarski, J.W. Sensinger, P.D. Marasco (2021). Embodied Cooperation to Promote Forgiving Interactions With Autonomous Machines. Frontiers in Neurorobotics, 2021 Apr 9;15:661603. https://doi.org/10.3389/fnbot.2021.661603
V.N. Thakur, M.A. Basso, J. Ditterich, B.J. Knowlton, (2021). Implicit and explicit learning of Bayesian priors differently impacts bias during perceptual decision-making. bioRxiv. https://doi.org/10.1101/2021.03.05.434141
Catta-Preta R, Zdilar I, Jenner B, Doisy ET, Tercovich K, Nord AS, Gurkoff GG. Transcriptional Pathology Evolves over Time in Rat Hippocampus after Lateral Fluid Percussion Traumatic Brain Injury. Neurotrauma Rep. 2021 Nov 23;2(1):512-525. https://doi.org/10.1089/neur.2021.0021
2020
D. Ao, M.S. Shourijeh, C. Patten, B.J. Fregly (2020). Evaluation of Synergy Extrapolation for Predicting Unmeasured Muscle Excitations from Measured Muscle Synergies. Frontiers in Computational Neuroscience. 2020 Dec 4; 14:588943. https://doi.org/10.3389/fncom.2020.588943
M.M. Arones, M.S. Shourijeh, C. Patten, B.J. Fregly (2020). Musculoskeletal Model Personalization Affects Metabolic Cost Estimates for Walking. Frontiers in Bioengineering and Biotechnology. 2020 Nov 26; 8:588925. https://doi.org/10.3389/fbioe.2020.588925
M. Battraw, W. Joiner, M. James, and J. Schofield (2020). Perspectives on Leveraging Advancements in Adult Upper Limb Prostheses to Improve Pediatric Device Acceptance, MEC20 Symposium, Jul. 2020.
A. Bollimunta, S.R. Santacruz, R.W. Eaton, P.S. Xu, J.H. Morrison, K.A. Moxon, J.M. Carmena, J.J. Nassi (2020). Head-mounted microendoscopic calcium imaging in dorsal premotor cortex of behaving rhesus macaque. bioRxiv. 2020 Apr 13. doi: https://doi.org/10.1101/2020.04.10.996116
N. Bridges, M. Stickle, K. Moxon (2020). Transitioning from global to local computational strategies during brain-machine interface learning. bioRxiv. doi: https://doi.org/10.1101/2020.03.05.978908
R. Brower, R. Wang, W. Zhou, J. Fitzgerald, S. Bansal, T. Lesh, C. Carter, W. Joiner (2020). Diminished Ability to Generalize Visuomotor Rotation Adaptation in Psychotic Disorders. Biological Psychiatry 87 (9), S273, May 01, 2020. doi: https://doi.org/10.1016/j.biopsych.2020.02.705
D.J. Dean, J.A. Bernard, K.S.F. Damme, R. O’Reilly, J.M. Orr, V.A. Mittal (2020). Longitudinal Assessment and Functional Neuroimaging of Movement Variability Reveal Novel Insights Into Motor Dysfunction in Clinical High Risk for Psychosis, Schizophrenia Bulletin, Volume 46, Issue 6, November 2020, Pages 1567–1576, https://doi.org/10.1093/schbul/sbaa072
H. Devillez, N. Guyader, T. Curran, R.C. O’Reilly (2020). The bimodality of saccade duration during the exploration of visual scenes. Visual Cognition, 28:9, 484-512, DOI: 10.1080/13506285.2020.1830325
Downer J.D., Verhein J.R., Rapone B.C., O’Connor K.N., Sutter M.L. An emergent population code in primary auditory cortex supports selective attention to spectral and temporal sound features. bioRxiv 2020.03.09.984773. doi: https://doi.org/10.1101/2020.03.09.984773
M. Fedyk, H. Black, M. Yarborough, N. Fairman, N.S. Wenger (2020). Bioethics Emergencies Can Be Used to Perform a Real-World Test of Utilitarian Policies. The American Journal of Bioethics. 2020 Jul; 20(7):101-103. https://doi.org/10.1080/15265161.2020.1779398
F. Girgis, H. Zarabi, M. Said, L. Zhang, K. Shahlaie, I. Saez (2020). Comparison of Intraoperative Computed Tomography Scan with Postoperative Magnetic Resonance Imaging for Determining Deep Brain Stimulation Electrode Coordinates. World Neurosurgery. 2020 Jun;138:e330-e335. https://doi.org/10.1016/j.wneu.2020.02.108
F. Girgis, E. Ovruchesky, J. Kennedy, M. Seyal, K. Shahlaie, I. Saez (2020). Superior accuracy and precision of SEEG electrode insertion with frame-based vs. frameless stereotaxy methods. Acta Neurochir (Wien) 162, 2527–2532 (2020). https://doi.org/10.1007/s00701-020-04427-1
N. Goshi, R.K. Morgan, P.J. Lein, E. Seker (2020). A primary neural cell culture model to study neuron, astrocyte, and microglia interactions in neuroinflammation. Journal of Neuroinflammation 17:155 (2020). https://doi.org/10.1186/s12974-020-01819-z
W. Ishihara, K. Moxon, S. Ehrman, M. Yarborough, T.L. Panontin, D. Nathan-Roberts (2020). Feedback Modalities in Brain–Computer Interfaces: A Systematic Review. Proceedings of the Human Factors and Ergonomics Society Annual Meeting. https://doi.org/10.1177/1071181320641283