Research
Recent Publications
2025
Kramer MA. Brain-inspired interpretable reservoir computing with resonant recurrent neural networks, arXiv.
Kwon H, Chinappen DM, Wodeyar A, Kinard E, Goodman S, Shi W, Baxter BS, Manoach DS, Kramer MA, Chu CJ. Changes in slow oscillations and sleep spindles by auditory stimulation positively correlate with memory consolidation in children with epilepsy and controls, bioRxiv.
Wodeyar A, Chinappen D, Kwon H, Shi W, Richardson M, Kramer MA, Chu CJ. A hierarchical cascade of sleep rhythms drive memory consolidation in humans and are disrupted in epilepsy, bioRxiv
Shappell HM, Kramer MA, Chu CJ, Kolaczyk ED. Accounting for edge uncertainty in stochastic actor-oriented models for dynamic network analysis, Network Science. 2025; 13:e8.
Wodeyar A, Kramer MA, Chu CJ. Thalamic engagement by epileptic spikes as a mechanism for widespread slow oscillation-spindle decoupling, Epilepsia. 2025 May 27.
2024
Kwon H, Chinappen DM, Kinard EA, Goodman SK, Huang JF, Berja ED, Walsh KG, Shi W, Manoach DS, Kramer MA, Chu CJ. Association of Sleep Spindle Rate With Memory Consolidation in Children With Rolandic Epilepsy. Neurology. 2025 Jan 28;104(2):e210232.
Carbonero D, Noueihed J, Kramer MA, White JA. Nonnegative matrix factorization for analyzing state dependent neuronal network dynamics in calcium recordings. Sci Rep. 2024 Nov 13;14(1):27899.
Berja ED, Kwon H, Walsh KG, Bates SV, Kramer MA, Chu CJ. Infant sleep spindle measures from EEG improve prediction of cerebral palsy. Clin Neurophysiol. 2024 Nov;167:51-60.
Schlafly ED, Carbonero D, Chu CJ, Kramer MA. A data augmentation procedure to improve detection of spike ripples in brain voltage recordings. Neurosci Res. 2025 Jun;215:15-26.
Kramer MA, Chu CJ. A General, Noise-Driven Mechanism for the 1/f-Like Behavior of Neural Field Spectra. Neural Comput. 2024 Jul 19;36(8):1643-1668.
Shi W, Eden U, Kramer MA, Chu CJ. Reply: The challenge of assessing invasive biomarkers for epilepsy surgery and To plan efficacious epilepsy surgery. Brain. 2024 Aug 1;147(8):e58-e60.
Wodeyar A, Chinappen D, Mylonas D, Baxter B, Manoach DS, Eden UT, Kramer MA, Chu CJ. Thalamic epileptic spikes disrupt sleep spindles in patients with epileptic encephalopathy. Brain. 2024 Aug 1;147(8):2803-2816.
Shaw DC, Kondabolu K, Walsh KG, Shi W, Rillosi E, Hsiung M, Eden UT, Richardson RM, Kramer MA, Chu CJ, Han X. Photothrombosis induced cortical stroke produces electrographic epileptic biomarkers in mice. bioRxiv
Shi W, Shaw D, Walsh KG, Han X, Eden UT, Richardson RM, Gliske SV, Jacobs J, Brinkmann BH, Worrell GA, Stacey WC, Frauscher B, Thomas J, Kramer MA, Chu CJ. Spike ripples localize the epileptogenic zone best: an international intracranial study. Brain. 2024 Jul 5;147(7):2496-2506.
2023
Mount RA, Athif M, O’Connor M, Saligrama A, Tseng HA, Sridhar S, Zhou C, Bortz E, San Antonio E, Kramer MA, Man HY, Han X. The autism spectrum disorder risk gene NEXMIF over-synchronizes hippocampal CA1 network and alters neuronal coding. Front Neurosci. 2023 Oct 27;17:1277501.
Wodeyar A, Marshall FA, Chu CJ, Eden UT, Kramer MA. Different Methods to Estimate the Phase of Neural Rhythms Agree But Only During Times of Low Uncertainty. eNeuro. 2023 Nov 3;10(11):ENEURO.0507-22.2023.
McLaren JR, Luo Y, Kwon H, Shi W, Kramer MA, Chu CJ. Preliminary evidence of a relationship between sleep spindles and treatment response in epileptic encephalopathy. Ann Clin Transl Neurol. 2023 Sep;10(9):1513-1524.
Zhu X, Shappell H, Kramer MA, Chu CJ, Kolaczyk ED. Distinguishing between different percolation regimes in noisy dynamic networks with an application to epileptic seizures. PLoS Comput Biol. 2023 Jun 16;19(6):e1011188.
Chinappen DM, Ostrowski LM, Spencer ER, Kwon H, Kramer MA, Hämäläinen MS, Chu CJ. Decreased thalamocortical connectivity in resolved Rolandic epilepsy. Clin Neurophysiol. 2023 Sep;153:21-27.
Ostrowski LM, Chinappen DM, Stoyell SM, Song DY, Ross EE, Kramer MA, Emerton BC, Chu CJ. Children with Rolandic epilepsy have micro- and macrostructural abnormalities in white matter constituting networks necessary for language function. Epilepsy Behav. 2023 Jul;144:109254.
Shi W, Shaw D, Walsh KG, Han X, Eden UT, Richardson RM, Gliske SV, Jacobs J, Brinkmann BH, Worrell GA, Stacey WC, Frauscher B, Thomas J, Kramer MA, Chu CJ. Spike ripples localize the epileptogenic zone best: an international intracranial study. Brain. 2024 Jul 5;147(7):2496-2506.
Chinappen DM, Xiao G, Jing J, Spencer ER, Eden UT, Kramer MA, Westover MB, Chu CJ. Spike height improves prediction of future seizure risk. Clin Neurophysiol. 2023 Jun;150:49-55.
Kwon H, Walsh KG, Berja ED, Manoach DS, Eden UT, Kramer MA, Chu CJ. Sleep spindles in the healthy brain from birth through 18 years. Sleep. 2023 Apr 12;46(4):zsad017.
Manuscript Aggregators
Code
MATLAB Code for Case Studies in Neural Data Analysis
Python Code for Case Studies in Neural Data Analysis
Support
2025-2030 | NIH NINDS | Award R01NS139524 |
2023-2026 | NIH NINDS | Award UE5NS128292 |
2021-2025 | NIH NINDS | Award R01NS119483 |
2019-2024 | NIH NINDS | Award R01NS110669 |
2018-2021 | NIH NIBIB | Award R01EB026938 |
2015-2020 | NSF DMS | Award #1451384 |
2016-2018 | NIH NINDS | Award R01NS095369 |
2015-2018 | NIH NIGMS | Award R25GM114827 |
2011-2016 | NIH NINDS | Award R01NS072023 |
2009-2016 | The Burroughs Wellcome Fund | CASI |
The Research Computing Services at Boston University.
The Boston University Undergraduate Research Opportunities Program (UROP).