Publications
You can also find my articles on my Google Scholar profile.
(* denotes equal contribution, † co-senior)
- Interpretable deep learning for deconvolutional analysis of neural signals
B. Tolooshams*, S. Matias*, H. Wu, S. Temereanca, N. Uchida, V.N. Murthy, P. Masset†, D. Ba†
Neuron 2025 [paper][code]
Highlights and News: - Nature Methods research highlights: Unraveling the black box in neural signal analysis
- Nature Neuroscience research highlights: Opening the deep learning box
- Kempner Institute news: Study introduces innovative method to decode complex neural data
- Kempner Institute deep learning blog: Mechanistic interpretability: a challenge common to both artificial and biological intelligence
- Harvard University MCB department news: New deep learning framework reveals hidden structure in neural activity
- An opponent striatal circuit for distributional reinforcement learning
A.S. Lowet, Q. Zheng, M. Meng, S. Matias, J. Drugowitsch, N. Uchida
Nature 2025 [paper][code][data]
Highlights and News: - Harvard University MCB department news: How Brains (and AI) Use Variability in Rewards to Bolster Learning
- AZO Life Sciences: How the Brain Uses Reinforcement Learning Beyond Just Mean Rewards
- Prospective contingency explains behavior and dopamine signals during associative learning
L. Qian*, M. Burrell*, J.A. Hennig, S. Matias, V. N. Murthy, S.J. Gershman, N. Uchida
Nature Neuroscience 2025 [paper][code]
Highlights and News: - Harvard University MCB department news: Decoding Learning: How Cues and Rewards Shape Behavior and Dopamine Signals
- PsyAsia Neuropsychology: Prospective contingency explains behavior and dopamine signals during associative learning
- Bioengineer: Decoding Learning: How Cues and Rewards Shape Behavior and Dopamine Signals
- A gradual temporal shift of dopamine responses mirrors the progression of temporal difference error in machine learning
R. Amo, S. Matias, A. Yamanaka, K.F. Tanaka, N. Uchida, M. Watabe-Uchida
Nature Neuroscience 2022 [paper]
Highlights and News: - Harvard University MCB department news: Uchida Lab Connects Machine Learning Theory to Biological Brains
- Medical Xpress: Study draws new link between dopamine-based reward learning and machine learning
- Distributional Reinforcement Learning in the Brain
A.S. Lowet, Q. Zheng, S. Matias, J. Drugowitsch, N. Uchida N
Trends in Neurosciences 2020 [paper] - Activity patterns of serotonin neurons underlying cognitive flexibility
S. Matias*, E. Lottem*, G.P. Dugué, Z.F. Mainen
eLife 2017 [paper][data]
Highlights and News: - Neuroscience News: When Our World Turns ‘Upside-Down,’ Serotonin Helps Us Deal With It
- Ar Magazine: When Our World Turns ‘Upside-Down,’ Serotonin Helps Us Deal With It
- ScienceBeta: Serotonin Neuron Activity Patterns Support Cognitive Flexibility
- Medical Xpress: When Our World Turns ‘Upside-Down,’ Serotonin Helps Us Deal With It
- Stereotaxic adeno-associated virus injection and cannula implantation in the dorsal raphe nucleus of mice
P.A. Correia, S. Matias, Z.F. Mainen
Bio-protocol 2017 [paper] - Bonsai: an event-based framework for processing and controlling data streams
G. Lopes, N. Bonacchi, J. Frazão, J.P. Neto, B.V. Atallah, S. Soares, L. Moreira, S. Matias, P.M. Itskov, P.A. Correia, R.E. Medina, L. Calcaterra, E. Dreosti, J.J. Paton, A.R. Kampff
Frontiers in neuroinformatics 2015 [paper] - Balanced activity in basal ganglia projection pathways is critical for contraversive movements
F. Tecuapetla, S. Matias, G.P. Dugué, Z.F. Mainen, R.M. Costa
Nature Communications 2014 [paper] - Optogenetic recruitment of dorsal raphe serotonergic neurons acutely decreases mechanosensory responsivity in behaving mice
G.P. Dugué, M.L. Lörincz, E. Lottem, E. Audero, S. Matias, P.A. Correia, C. Léna C, Z.F. Mainen ZF
PloS One 2014 [paper] - Electre Tri-C, a multiple criteria decision aiding sorting model applied to assisted reproduction
J.R. Figueira, J. Almeida-Dias, S. Matias, B. Roy, M.J. Carvalho, C.E. Plancha
International Journal of Medical Informatics 2011 [paper] Sitemap