Publications

Cross-Subject Modeling for Widefield Calcium Imaging via Atlas-Aligned Spatiotemporal Tokenization

Mohammad Hosseini, Eray Erturk, Saba Hashemi, Maryam M. Shanechi

306, 43984-44013

Preferential dynamic modeling with forward-backward smoothing

Omid G. Sani, Trisha Jha, Mohammad Hosseini, Maryam Shanechi

Multimodal LLMs Can Learn to Read Brain Signals: A Vision–Language Model for Unified Multi-Task EEG Decoding

Parastoo Azizeddin, Omid Sharafi, Maryam M. Shanechi

Learning Behaviorally Relevant Dynamics in Multimodal Neural Recordings

Parastoo Azizeddin, Eray Erturk, Maryam M. Shanechi

iMINDBench: iEEG Multi-Institution Neural Decoding Benchmark

Geeling Chau, Saba Hashemi, Yonghyeon Gwon, Eshani Patel, Jan DeWitt, Christopher Wang, Andrii Zahorodnii, Sabera J Talukder, Danny Dongyeop Han, Chun Kee Chung, Maryam M Shanechi, Yisong Yue

Prioritized nonlinear modeling of shared dynamics across neural populations

Trisha Jha, Dong Song, Maryam M Shanechi

23(5), 056054

Unsupervised learning of multiscale switching dynamical system models from multimodal neural data

DongKyu Kim, Christian Y Song, Han-Lin Hsieh, Maryam M Shanechi

23(2), 026039

BaRISTA: Brain Scale Informed Spatiotemporal Representation of Human Intracranial Neural Activity

Lucine L Oganesian, Saba Hashemi, Maryam Shanechi

38, 167161-167194

Dynamical Modeling of Behaviorally Relevant Spatiotemporal Patterns in Neural Imaging Data

Sayed Mohammad Hosseini, Maryam Shanechi

267, 23846-23872

Dynamical modeling of nonlinear latent factors in multiscale neural activity with real-time inference

Eray Erturk, Maryam Shanechi

38, 27538-27577

BRAID: Input-driven Nonlinear Dynamical Modeling of Neural-Behavioral Data

Parsa Vahidi, Omid G. Sani, Maryam M. Shanechi

6610-6639

Cross-Modal Representational Knowledge Distillation for Enhanced Spike-informed LFP Modeling

Eray Erturk, Saba Hashemi, Maryam Shanechi

38, 53711-53756

Prioritized learning of cross-population neural dynamics

Trisha Jha, Omid G Sani, Bijan Pesaran, Maryam M Shanechi

22(4), 046040

Preferential subspace identification (PSID) with forward-backward smoothing

Omid G. Sani, Maryam M. Shanechi

Probabilistic geometric principal component analysis with application to neural data

Han-Lin Hsieh, Maryam M. Shanechi

58365-58383

Challenges and opportunities of acquiring cortical recordings for chronic adaptive deep brain stimulation

Jeffrey Herron, Aura Kullmann, Timothy Denison, Wayne K. Goodman, Aysegul Gunduz, Wolf-Julian Neumann, Nicole R. Provenza, Maryam M. Shanechi, Sameer A. Sheth, Philip A. Starr, Alik S. Widge

9(5), 606-617

An application-based taxonomy for brain–computer interfaces

Jacob T. Robinson, Sumner L. Norman, Matthew R. Angle, Timothy G. Constandinou, Timothy Denison, John P. Donoghue, Ryan M. Field, Andreas Forsland, Sid Kouider, José del R. Millán, Jonathan A. Michaels, Amy L. Orsborn, Chethan Pandarinath, J. Andrew Pruszynski, Christopher J. Rozell, Nishal P. Shah, Maryam M. Shanechi, Mahsa Shoaran, Sameer A. Sheth, Sergey D. Stavisky, Eric Trautmann, Nicolas Vachicouras, Chong Xie

9(6), 789-791

Dissociative and prioritized modeling of behaviorally relevant neural dynamics using recurrent neural networks

Omid G. Sani, Bijan Pesaran, Maryam M. Shanechi

27(10), 2033-2045

Dynamical flexible inference of nonlinear latent factors and structures in neural population activity

Hamidreza Abbaspourazad, Eray Erturk, Bijan Pesaran, Maryam M. Shanechi

8(1), 85-108

Modeling and dissociation of intrinsic and input-driven neural population dynamics underlying behavior

Parsa Vahidi, Omid G. Sani, Maryam M. Shanechi

121(7), e2212887121

Spectral Learning of Shared Dynamics Between Generalized-Linear Processes

Lucine L. Oganesian, Omid G. Sani, Maryam Shanechi

37, 89150-89183

Brain–computer interfaces for neuropsychiatric disorders

Lucine L. Oganesian, Maryam M. Shanechi

2(8), 653-670

Event detection and classification from multimodal time series with application to neural data

Nitin Sadras, Bijan Pesaran, Maryam M Shanechi

21(2), 026049

Multimodal subspace identification for modeling discrete-continuous spiking and field potential population activity

Parima Ahmadipour, Omid G Sani, Bijan Pesaran, Maryam M Shanechi

21(2), 026001

Unsupervised learning of stationary and switching dynamical system models from Poisson observations

Christian Y Song, Maryam M Shanechi

20(6), 066029

Post-stimulus encoding of decision confidence in EEG: toward a brain–computer interface for decision making

Nitin Sadras, Omid G Sani, Parima Ahmadipour, Maryam M Shanechi

20(5), 056012

First-in-human prediction of chronic pain state using intracranial neural biomarkers

Prasad Shirvalkar, Jordan Prosky, Gregory Chin, Parima Ahmadipour, Omid G. Sani, Maansi Desai, Ashlyn Schmitgen, Heather Dawes, Maryam M. Shanechi, Philip A. Starr, Edward F. Chang

26(6), 1090-1099

Modeling and inference methods for switching regime-dependent dynamical systems with multiscale neural observations

Christian Y Song, Han-Lin Hsieh, Bijan Pesaran, Maryam M Shanechi

19(6), 066019

Modeling multiscale causal interactions between spiking and field potential signals during behavior

Chuanmeizhi Wang, Bijan Pesaran, Maryam M Shanechi

19(2), 026001

Modeling behaviorally relevant neural dynamics enabled by preferential subspace identification

Omid G. Sani, Hamidreza Abbaspourazad, Yan T. Wong, Bijan Pesaran, Maryam M. Shanechi

24(1), 140-149

Modelling and prediction of the dynamic responses of large-scale brain networks during direct electrical stimulation

Yuxiao Yang, Shaoyu Qiao, Omid G. Sani, J. Isaac Sedillo, Breonna Ferrentino, Bijan Pesaran, Maryam M. Shanechi

5(4), 324-345

Sensory feedback can give rise to neural rotations

Omid G Sani, Maryam M Shanechi

10, e75469

Multiscale low-dimensional motor cortical state dynamics predict naturalistic reach-and-grasp behavior

Hamidreza Abbaspourazad, Mahdi Choudhury, Yan T. Wong, Bijan Pesaran, Maryam M. Shanechi

12(1), 607

Adaptive latent state modeling of brain network dynamics with real-time learning rate optimization

Yuxiao Yang, Parima Ahmadipour, Maryam M Shanechi

18(3), 036013

Adaptive tracking of human ECoG network dynamics

Parima Ahmadipour, Yuxiao Yang, Edward F Chang, Maryam M Shanechi

18(1), 016011

Multiscale low-dimensional neural dynamics explain naturalistic 3D movements

Hamidreza Abbaspourazad, Mahdi Choudhary, Yan Wong, Bijan Pesaran, Maryam Shanechi

Feb. 27–Mar. 1, Denver, CO

Modeling behaviorally relevant neural dynamics with a novel preferential subspace identification (PSID)

Omid Sani, Bijan Pesaran, Maryam Shanechi

Feb. 27–Mar. 1, Denver, CO

Modeling large-scale brain network dynamics in response to electrical stimulation

Yuxiao Yang, Shaoyu Qiao, Omid Sani, Isaac Sedillo, Breonna Ferrentino, Bijan Pesaran, Maryam Shanechi

Feb. 27–Mar. 1, Denver, CO

Brain–machine interfaces from motor to mood

Maryam M. Shanechi

22(10), 1554-1564

A point-process matched filter for event detection and decoding from population spike trains

Nitin Sadras, Bijan Pesaran, Maryam M Shanechi

16(6), 066016

Dynamic network modeling and dimensionality reduction for human ECoG activity

Yuxiao Yang, Omid G Sani, Edward F Chang, Maryam M Shanechi

16(5), 056014

Sparse model-based estimation of functional dependence in high-dimensional field and spike multiscale networks

Ramin Bighamian, Yan T Wong, Bijan Pesaran, Maryam M Shanechi

16(5), 056022

A Multiscale Dynamical Modeling and Identification Framework for Spike-Field Activity

Hamidreza Abbaspourazad, Han-Lin Hsieh, Maryam M. Shanechi

27(6), 1128-1138

Estimating Multiscale Direct Causality Graphs in Neural Spike-Field Networks

Chuanmeizhi Wang, Maryam M. Shanechi

27(5), 857-866

Developing a personalized closed-loop controller of medically-induced coma in a rodent model

Yuxiao Yang, Justin T Lee, Jennifer A Guidera, Ksenia Y Vlasov, JunZhu Pei, Emery N Brown, Ken Solt, Maryam M Shanechi

16(3), 036022

Decoder for Switching State-Space Models with Spike-Field Observations

Christian Y. Song, Han-Lin Hsieh, Maryam M. Shanechi

199-202

Investigating the effect of forgetting factor on tracking non-stationary neural dynamics

Parima Ahmadipour, Yuxiao Yang, Maryam M. Shanechi

291-294

Multiscale modeling and decoding algorithms for spike-field activity

Han-Lin Hsieh, Yan T Wong, Bijan Pesaran, Maryam M Shanechi

16(1), 016018

Mood variations decoded from multi-site intracranial human brain activity

Omid G Sani, Yuxiao Yang, Morgan B Lee, Heather E Dawes, Edward F Chang, Maryam M Shanechi

36(10), 954-961

Direct Electrical Stimulation of Lateral Orbitofrontal Cortex Acutely Improves Mood in Individuals with Symptoms of Depression

Vikram R. Rao, Kristin K. Sellers, Deanna L. Wallace, Morgan B. Lee, Maryam Bijanzadeh, Omid G. Sani, Yuxiao Yang, Maryam M. Shanechi, Heather E. Dawes, Edward F. Chang

28(24), 3893-3902.e4

A control-theoretic system identification framework and a real-time closed-loop clinical simulation testbed for electrical brain stimulation

Yuxiao Yang, Allison T Connolly, Maryam M Shanechi

15(6), 066007

Optimizing the learning rate for adaptive estimation of neural encoding models

Han-Lin Hsieh, Maryam M. Shanechi

14(5), e1006168

Identifying multiscale hidden states to decode behavior

Hamidreza Abbaspourazad, Yan Wong, Bijan Pesaran, Maryam M. Shanechi

3778-3781

Estimation of Functional Dependence in High-Dimensional Spike-Field Activity

Ramin Bighamian, Maryam M. Shanechi

2635-2638

Decoding Spike Trains from Neurons with Spatio-Temporal Receptive Fields

Nitin Sadras, Maryam M. Shanechi

2012-2015

An Information-Theoretic Measure of Multiscale Causality for Spike-Field Activity

Chuanmeizhi Wang, Maryam M. Shanechi

2631-2634

Multiscale modeling and decoding of spike-field activity during a naturalistic reach-to-grasp task

Han-Lin Hsieh, Yan Wong, Bijan Pesaran, Maryam Shanechi

1–4 Mar., Denver, CO

A novel framework for dynamic modeling of brain-network response to electrical stimulation

Yuxiao Yang, Omid Sani, Kristin Sellers, Edward Chang, Maryam Shanechi

1–4 Mar., Denver, CO

Decoding mood state from multisite ECoG activity in human subjects

Omid Sani, Yuxiao Yang, Morgan Lee, Heather Dawes, Edward Chang, Maryam Shanechi

1–4 Mar., Denver, CO

Brain–Machine Interfaces

Maryam M. Shanechi

197-218

Rapid control and feedback rates enhance neuroprosthetic control

Maryam M. Shanechi, Amy L. Orsborn, Helene G. Moorman, Suraj Gowda, Siddharth Dangi, Jose M. Carmena

8(1), 13825

Brain–Machine Interface Control Algorithms

Maryam M. Shanechi

25(10), 1725-1734

Multiscale modeling of dependencies between spikes and fields

Hamidreza Abbaspourazad, Han-Lin Hsieh, Maryam M. Shanechi

719-723

Dynamic tracking of non-stationarity in human ECoG activity

Yuxiao Yang, Edward F. Chang, Maryam M. Shanechi

1660-1663

Multiscale decoding for reliable brain-machine interface performance over time

Han-Lin Hsieh, Yan T. Wong, Bijan Pesaran, Maryam M. Shanechi

197-200

An unsupervised learning algorithm for multiscale neural activity

Hamidreza Abbaspourazad, Maryam M. Shanechi

201-204

Multiscale decoding of spike-field activity to improve brain-machine interface robustness and longevity

H. Hsieh, Y.T. Wong, B. Pesaran, M. M. Shanechi

Society for Neuroscience (SFN), 11–15 Nov., Washington, DC

Learning the dependencies between spikes and fields in multiscale modeling

H. Abbaspourazad, M. M. Shanechi

Society for Neuroscience (SFN), 11–15 Nov., Washington, DC

Modeling dynamic brain network responses to electrical stimulation

Y. Yang, K.K. Sellers, E. F. Chang, M. M. Shanechi

Society for Neuroscience (SFN), 11–15 Nov., Washington, DC

Real-time decoding of mood from human large-scale ECoG activity

O. Sani, Y. Yang, E. F. Chang, M. M. Shanechi

Society for Neuroscience (SFN), 11–15 Nov., Washington, DC

An adaptive and generalizable closed-loop system for control of medically induced coma and other states of anesthesia

Yuxiao Yang, Maryam M Shanechi

13(6), 066019

Robust Brain-Machine Interface Design Using Optimal Feedback Control Modeling and Adaptive Point Process Filtering

Maryam M. Shanechi, Amy L. Orsborn, Jose M. Carmena

12(4), e1004730

Generalized binary noise stimulation enables time-efficient identification of input-output brain network dynamics

Yuxiao Yang, Maryam M. Shanechi

1766-1769

Multiscale brain-machine interface decoders

Han-Lin Hsieh, Maryam M. Shanechi

6361-6364

A new modeling framework for multiscale neural activity underlying behavior

H. Abbaspourazad, M.M. Shanechi

San Diego, CA

Adaptive multiscale brain-machine interface decoders

H. Hsieh, M.M. Shanechi

San Diego, CA

Adaptive identification of high-dimensional brain network dynamics to track non-stationarity and plasticity

Y. Yang, M.M. Shanechi

San Diego, CA

A framework for identification of brain network dynamics using a novel binary noise modulated electrical stimulation pattern

Yuxiao Yang, Maryam M. Shanechi

2087-2090

Optimal calibration of the learning rate in closed-loop adaptive brain-machine interfaces

Han-Lin Hsieh, Maryam M. Shanechi

1667-1670

A generalizable adaptive brain-machine interface design for control of anesthesia

Yuxiao Yang, Maryam M. Shanechi

1099-1102

Modeling brain network dynamics underlying mood disorders

A. Connolly, Y. Yang, E.F. Chang, M.M. Shanechi

Chicago, Il

A novel binary noise modulated electrical stimulation pattern for identification of brain network dynamics

Y. Yang, A. Connolly, M.M. Shanechi

Chicago, Il

A general framework for optimal selection of the learning rate in closed-loop brain-machine interfaces

H. Hsieh, M.M. Shanechi

Chicago, Il

Rapid sensorimotor control and feedback rates enhance neuroprosthetic control

M.M. Shanechi, A.L. Orsborn, H. Moorman, S. Gowda, S Dangi, J.M. Carmena

Chicago, Il

An adaptive and robust brain-machine interface architecture for closed-loop control of anesthesia

Y. Yang, M.M. Shanechi

Honolulu, HI

Closed-loop decoder adaptation shapes neural plasticity for skillful neuroprosthetic control

Amy L. Orsborn, Helene G. Moorman, Simon A. Overduin, Maryam M. Shanechi, Dragan F. Dimitrov, Jose M. Carmena

82(6), 1380-1393

Continuous closed-loop decoder adaptation with a recursive maximum likelihood algorithm allows for rapid performance acquisition in brain-machine interfaces

Siddharth Dangi, Suraj Gowda, Helene G. Moorman, Amy L. Orsborn, Kelvin So, Maryam Shanechi, Jose M. Carmena

26(9), 1811-1839

A cortical–spinal prosthesis for targeted limb movement in paralysed primate avatars

Maryam M. Shanechi, Rollin C. Hu, Ziv M. Williams

5(1)

An adaptive brain-machine interface algorithm for control of burst suppression in medical coma

Yuxiao Yang, Maryam M. Shanechi

1638-1641

High-performance brain-machine interface enabled by an adaptive optimal feedback-controlled point process decoder

Maryam M. Shanechi, Amy Orsborn, Helene Moorman, Suraj Gowda, Jose M. Carmena

6493-6496

A design of neural decoder by reducing discrepancy between Manual Control (MC) and Brain Control (BC)

Young Hwan Chang, Mo Chen, Maryam Shanechi, Jose M. Carmena, Claire Tomlin

516-521

Spike-by-spike control using an adaptive optimal feedback-controlled point process decoder improves BMI performance

M.M. Shanechi, A.L. Orsborn, H. Moorman, S. Gowda, S. Dangi, J.M. Carmena

Washington DC

Control of burst-suppression in a rodent model of medical coma using a brain-machine interface

M. M. Shanechi, J. Chemali, M. Liberman, K. Solt, E. N. Brown

Montreal, Canada

A brain-machine interface for control of medically-induced coma

Maryam M. Shanechi, Jessica J. Chemali, Max Liberman, Ken Solt, Emery N. Brown

9(10), e1003284

A real-time brain-machine interface combining motor target and trajectory intent using an optimal feedback control design

Maryam M. Shanechi, Ziv M. Williams, Gregory W. Wornell, Rollin C. Hu, Marissa Powers, Emery N. Brown

8(4), e59049

Optimal feedback-controlled point process decoder for adaptation and assisted training in brain-machine interfaces

Maryam M. Shanechi, Jose M. Carmena

653-656

Proficient BMI control enabled by closed-loop adaptation of an optimal feedback-controlled point process decoder

M. M. Shanechi, A. Orsborn, S. Gowda, J. M. Carmena

San Diego, CA

A brain-machine interface for control of burst suppression in medical coma

Maryam M. Shanechi, Jessica J. Chemali, Max Liberman, Ken Solt, Emery N. Brown

1575-1578

A brain-machine interface for control of medically-induced coma

M. M. Shanechi, J. Chemali, M. Liberman, K. Solt, E. N. Brown

Salt Lake City

A brain-machine interface for control of medically-induced coma

M. M. Shanechi, J. Chemali, M. Liberman, K. Solt, E. N. Brown

San Diego, CA

Feedback-controlled parallel point process filter for estimation of goal-directed movements from neural signals

Maryam M. Shanechi, Gregory W. Wornell, Ziv M. Williams, Emery N. Brown

21(1), 129-140

Neural population partitioning and a concurrent brain-machine interface for sequential motor function

Maryam M Shanechi, Rollin C Hu, Marissa Powers, Gregory W Wornell, Emery N Brown, Ziv M Williams

15(12), 1715-1722

A concurrent brain-machine interface for enhanced motor function

M. M. Shanechi, R. Hu, M. Powers, G. W. Wornell, E. N. Brown, Z. M. Williams

Salt Lake City, USA

A real-time concurrent brain-machine interface for performing sequential movements

M. M. Shanechi, R. Hu, M. Powers, G. W. Wornell, E. N. Brown, Z. M. Williams

Society for Neuroscience (SFN), Washington, USA

A brain-machine interface combining target and trajectory information using optimal feedback control

M. M. Shanechi, R. Hu, M. Powers, G. W. Wornell, E. N. Brown, Z. M. Williams

Salt Lake City, USA

Real-time brain-machine interface architectures: neural decoding from plan to movement

Maryam Modir Shanechi

PhD Dissertation, MIT, April

Comparison of practical feedback algorithms for multiuser MIMO

Maryam Modir Shanechi, Ron Porat, Uri Erez

58(8), 2436-2446

A parallel point-process filter for estimation of goal-directed movements from neural signals

Maryam Modir Shanechi, Gregory W. Wornell, Ziv Williams, Emery N. Brown

521-524

Combining plan and peri-movement activities improves the performance of brain-machine interfaces

M. M. Shanechi, Z. M. Williams, G. W. Wornell, E. N. Brown

Society for Neuroscience (SFN), San Diego, USA

A real-time brain-machine interface combining plan and peri-movement activities

M. M. Shanechi, Z. M. Williams, G. W. Wornell, E. N. Brown

Santorini, Greece

Comparison of practical feedback algorithms for multiuser MIMO

Maryam Modir Shanechi, Ron Porat, Uri Erez

1-5

Rateless codes for MIMO channels

Maryam Modir Shanechi, Uri Erez, Gregory W. Wornell

1-5

Time-invariant rateless codes for MIMO channels

Maryam Modir Shanechi, Uri Erez, Kevin P. Boyle, Gregory W. Wornell

2247-2251

On Universal Coding for Parallel Gaussian Channels

Maryam Modir Shanechi, Uri Erez, Gregory Wornell

94-97

On the importance of phase in human speech recognition

Guangji Shi, M.M. Shanechi, P. Aarabi

14(5), 1867-1874

Phase-based speech processing

Parham Aarabi, Guangji Shi, Maryam Modir Shanechi, Seyed Alireza Rabi

World Scientific

Post recognition speech localization

Sam Mavandadi, Parham Aarabi, Keyvan Mohajer, Maryam Modir Shanechi

8(2), 173-180

Structural analysis of multisensor arrays for speech separation applications

Maryam Modir Shanechi, Parham Aarabi

5099, 327