Publications

Artifact filtering application to increase online parity in a communication BCI: progress toward use in daily-life

Tab Memmott, Daniel Klee, Niklas Smedemark-Margulies, Barry Oken

Frontiers in Human Neuroscience

2025

RSVP keyboard with inquiry preview: mixed performance and user experience with an adaptive, multimodal typing interface combining EEG and switch input

Betts Peters, Basak Celik, Dylan Gaines, Deirdre Galvin-McLaughlin, Tales Imbiriba, Michelle Kinsella, Daniel Klee, Matthew Lawhead, Tab Memmott, Niklas Smedemark-Margulies, Jack Wiedrick, Deniz Erdogmus, Barry Oken, Vertanen Keith, Melanie Fried-Oken

Journal of Neural Engineering

2025

Improving subject transfer in EEG classification with divergence estimation

Niklas Smedemark-Margulies, Ye Wang, Toshiaki Koike-Akino, Jing Liu, Kieran Parsons, Yunus Bicer, Deniz Erdogmus

Journal of Neural Engineering

2024

Fast and Expressive Gesture Recognition using a Combination-Homomorphic Electromyogram Encoder

Niklas Smedemark-Margulies, Yunus Bicer, Elifnur Sunger, Tales Imbiriba, Eugene Tunik, Deniz Erdogmus, Mathew Yarossi, Robin Walters

TMLR

2024

Code

User Training with Error Augmentation for Electromyogram-based Gesture Classification

Yunus Bicer^†, Niklas Smedemark-Margulies^†, Basak Celik, Elifnur Sunger, Ryan Orendorff, Stephanie Naufel, Tales Imbiriba, Deniz Erdogmus, Eugene Tunik, Mathew Yarossi

TNSRE

2024

Fair and Useful Cohort Selection

Konstantina Bairaktari, Paul Tsela Langton, Huy Nguyen, Niklas Smedemark-Margulies, Jonathan Ullman

Transactions on Machine Learning Research

2023

A Multi-label Classification Approach to Increase Expressivity of EMG-based Gesture Recognition

Niklas Smedemark-Margulies^†, Yunus Bicer^†, Elifnur Sunger, Stephanie Naufel, Tales Imbiriba, Eugene Tunik, Deniz Erdogmus, Mathew Yarossi

ArXiv

2023

Code

Recursive Estimation of User Intent From Noninvasive Electroencephalography Using Discriminative Models

Niklas Smedemark-Margulies, Basak Celik, Tales Imbiriba, Aziz Kocanaogullari, Deniz Erdogmus

ICASSP

2023

Code

Probabilistic program inference in network-based epidemiological simulations

Niklas Smedemark-Margulies^†, Robin Walters^†, Heiko Zimmermann, Lucas Laird, Christian Loo, Neela Kaushik, Rajmonda Caceres, Jan-Willem Meent

PLOS Computational Biology

2022

Code

Improving adversarial robustness by learning shared information

Xi Yu, Niklas Smedemark-Margulies, Shuchin Aeron, Toshiaki Koike-Akino, Pierre Moulin, Matthew Brand, Kieran Parsons, Ye Wang

Pattern Recognition

2022

AutoTransfer: Subject transfer learning with censored representations on biosignals data

Niklas Smedemark-Margulies, Ye Wang, Toshiaki Koike-Akino, Deniz Erdogmus

IEEE EMBC

2022

Target-related alpha attenuation in a brain-computer interface rapid serial visual presentation calibration

Daniel Klee, Tab Memmott, Niklas Smedemark-Margulies, Basak Celik, Deniz Erdogmus, Barry S Oken

Frontiers in Human Neuroscience

2022

Code

Inference in Network-based Epidemiological Simulations with Probabilistic Programming

Niklas Smedemark-Margulies^†, Robin Walters^†, Heiko Zimmermann, Lucas Laird, Neela Kaushik, Rajmonda Caceres, Jan-Willem Meent

ICLR AI for Public Health Workshop

2021

Geometric analysis of uncertainty sampling for dense neural network layer

Aziz Kocanaogullari, Niklas Smedemark-Margulies, Murat Akcakaya, Deniz Erdogmus

IEEE Signal Processing Letters

2021

Generator surgery for compressed sensing

Niklas Smedemark-Margulies^†, Jung Yeon Park^†, Max Daniels, Rose Yu, Jan-Willem Meent, Paul Hand

arXiv

2021

Code

Generator Surgery for Compressed Sensing

Jung Yeon Park^†, Niklas Smedemark-Margulies^†, Max Daniels, Rose Yu, Jan-Willem Meent, Paul Hand

NeurIPS Deep Inverse Workshop

2020

Code

De novo ATP1A3 and compound heterozygous NLRP3 mutations in a child with autism spectrum disorder, episodic fatigue and somnolence, and muckle-wells syndrome

Alcy Torres, Catherine A Brownstein, Sahil K Tembulkar, Kelsey Graber, Casie Genetti, Robin J Kleiman, Kathleen J Sweadner, Chrystal Mavros, Kevin X Liu, Niklas Smedemark-Margulies, Kiran Maski, Edward Yang, Pankaj B Agrawal, Jiahai Shi, Alan H Beggs, Eugene D’Angelo, Sarah Hope Lincoln, Devon Carroll, Fatma Dedeoglu, William A Gahl, Catherine M Biggs, Kathryn J Swoboda, Gerard T Berry, Joseph Gonzalez-Heydrich

Molecular Genetics and Metabolism Reports

2018

A novel de novo mutation in ATP1A3 and childhood-onset schizophrenia

Niklas Smedemark-Margulies, Catherine A Brownstein, Sigella Vargas, Sahil K Tembulkar, Meghan C Towne, Jiahai Shi, Elisa Gonzalez-Cuevas, Kevin X Liu, Kaya Bilguvar, Robin J Kleiman, Min-Joon Han, Alcy Torres, Gerard T Berry, Timothy W Yu, Alan H Beggs, Pankaj B Agrawal, Joseph Gonzalez-Heydrich

Molecular Case Studies

2016

Next-Generation Roadmap for Patient-Centered Genomics

Niklas Smedemark-Margulies

Harvard Medical School

2016

Gene expression analysis in Fmr1 KO mice identifies an immunological signature in brain tissue and mGluR5-related signaling in primary neuronal cultures

Daria Prilutsky, Alvin T Kho, Nathan P Palmer, Asha L Bhakar, Niklas Smedemark-Margulies, Sek Won Kong, David M Margulies, Mark F Bear, Isaac S Kohane

Molecular Autism

2015

All-optical electrophysiology in mammalian neurons using engineered microbial rhodopsins

Daniel R Hochbaum, Yongxin Zhao, Samouil L Farhi, Nathan Klapoetke, Christopher A Werley, Vikrant Kapoor, Peng Zou, Joel M Kralj, Dougal Maclaurin, Niklas Smedemark-Margulies, Jessica L Saulnier, Gabriella L Boulting, Christoph Straub, Yong Ku Cho, Michael Melkonian, Gane Ka-Shu Wong, D Jed Harrison, Venkatesh N Murthy, Bernardo L Sabatiny, Edward S Boyden, Robert E Campbell, Adam E Cohen

Nature Methods

2014

iPSC-derived neurons as a higher-throughput readout for autism: promises and pitfalls

Daria Prilutsky, Nathan P Palmer, Niklas Smedemark-Margulies, Thorsten M Schlaeger, David M Margulies, Isaac S Kohane

Trends in Molecular Medicine

2014

Tools, methods, and applications for optophysiology in neuroscience

Niklas Smedemark-Margulies, Josef G Trapani

Frontiers in Molecular Neuroscience

2013

Patents

Method and system for training a neural network for improving adversarial robustness

Ye Wang, Xi Yu, Niklas Smedemark-Margulies, Shuchin Aeron, Toshiaki Koike-Akino, Pierre Moulin, Matthew Brand, and Kieran Parsons

Submitted

2023

System and Method for Automated Transfer Learning with Domain Disentanglement

Toshiaki Koike-Akino, Ye Wang, and Niklas Smedemark-Margulies

Submitted

2023

Datasets

EMG from Combination Gestures with Ground-truth Joystick Labels

Niklas Smedemark-Margulies, Yunus Bicer, Elifnur Sunger, Stephanie Naufel, Tales Imbiriba, Eugene Tunik, Deniz Erdoğmuş, and Mathew Yarossi

Zenodo

2023

Code

Paper

EMG from Combination Gestures following Visual Prompts

Niklas Smedemark-Margulies, Yunus Bicer, Elifnur Sunger, Tales Imbiriba, Eugene Tunik, Deniz Erdogmus, Mathew Yarossi, and Robin Walters

Zenodo

2023

Code

Paper