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Recent work suggests that large-scale, multi-animal modeling can significantly improve neural recording analysis. However, for functional calcium traces, existing approaches remain task-specific, limiting transfer across common neuroscience…

Quantitative Methods · Quantitative Biology 2026-04-09 Xinhong Xu , Yimeng Zhang , Qichen Qian , Yuanlong Zhang

Characterizing interactions between brain areas is a fundamental goal of systems neuroscience. While such analyses are possible when areas are recorded simultaneously, it is rare to observe all combinations of areas of interest within a…

Neurons and Cognition · Quantitative Biology 2025-10-15 Ji Xia , Yizi Zhang , Shuqi Wang , Genevera I. Allen , Liam Paninski , Cole Lincoln Hurwitz , Kenneth D. Miller

Our ability to use deep learning approaches to decipher neural activity would likely benefit from greater scale, in terms of both model size and datasets. However, the integration of many neural recordings into one unified model is…

Large-scale models have exhibited remarkable capabilities across diverse domains, including automated medical services and intelligent customer support. However, as most large models are trained on single-modality corpora, enabling them to…

Computer Vision and Pattern Recognition · Computer Science 2025-08-26 Hao Sun , Yu Song , Jiaqing Liu , Jihong Hu , Yen-Wei Chen , Lanfen Lin

The performance of existing supervised neuron segmentation methods is highly dependent on the number of accurate annotations, especially when applied to large scale electron microscopy (EM) data. By extracting semantic information from…

Computer Vision and Pattern Recognition · Computer Science 2023-10-09 Yinda Chen , Wei Huang , Shenglong Zhou , Qi Chen , Zhiwei Xiong

Scaling data and artificial neural networks has transformed AI, driving breakthroughs in language and vision. Whether similar principles apply to modeling brain activity remains unclear. Here we leveraged a dataset of 3.1 million neurons…

Foundation models pretrained on large-scale datasets via self-supervised learning demonstrate exceptional versatility across various tasks. Due to the heterogeneity and hard-to-collect medical data, this approach is especially beneficial…

Computational Engineering, Finance, and Science · Computer Science 2024-03-05 Yanwu Yang , Chenfei Ye , Guinan Su , Ziyao Zhang , Zhikai Chang , Hairui Chen , Piu Chan , Yue Yu , Ting Ma

Self-supervised learning techniques are celebrating immense success in natural language processing (NLP) by enabling models to learn from broad language data at unprecedented scales. Here, we aim to leverage the success of these techniques…

Neurons and Cognition · Quantitative Biology 2023-01-18 Armin W. Thomas , Christopher Ré , Russell A. Poldrack

Modeling neural population dynamics underlying noisy single-trial spiking activities is essential for relating neural observation and behavior. A recent non-recurrent method - Neural Data Transformers (NDT) - has shown great success in…

Neurons and Cognition · Quantitative Biology 2022-06-13 Trung Le , Eli Shlizerman

Cognitive neuroscience is enjoying rapid increase in extensive public brain-imaging datasets. It opens the door to large-scale statistical models. Finding a unified perspective for all available data calls for scalable and automated…

Machine Learning · Statistics 2019-05-16 Arthur Mensch , Julien Mairal , Danilo Bzdok , Bertrand Thirion , Gaël Varoquaux

Cognitive brain imaging is accumulating datasets about the neural substrate of many different mental processes. Yet, most studies are based on few subjects and have low statistical power. Analyzing data across studies could bring more…

Machine Learning · Statistics 2021-05-20 Arthur Mensch , Julien Mairal , Bertrand Thirion , Gaël Varoquaux

There are multiple scales of abstraction from which we can describe the same image, depending on whether we are focusing on fine-grained details or a more global attribute of the image. In brain mapping, learning to automatically parse…

Recent work has demonstrated that large-scale, multi-animal models are powerful tools for characterizing the relationship between neural activity and behavior. Current large-scale approaches, however, focus exclusively on either predicting…

Conventional modeling approaches have found limitations in matching the increasingly detailed neural network structures and dynamics recorded in experiments to the diverse brain functionalities. On another approach, studies have…

Neurons and Cognition · Quantitative Biology 2017-09-05 Chaofei Hong

To make sense of their surroundings, intelligent systems must transform complex sensory inputs to structured codes that are reduced to task-relevant information such as object category. Biological agents achieve this in a largely autonomous…

Computer Vision and Pattern Recognition · Computer Science 2024-07-09 Robin Weiler , Matthias Brucklacher , Cyriel M. A. Pennartz , Sander M. Bohté

Recent advancements for large-scale pre-training with neural signals such as electroencephalogram (EEG) have shown promising results, significantly boosting the development of brain-computer interfaces (BCIs) and healthcare. However, these…

Signal Processing · Electrical Eng. & Systems 2025-03-21 Wei-Bang Jiang , Yansen Wang , Bao-Liang Lu , Dongsheng Li

The firing dynamics of biological neurons in mathematical models is often determined by the model's parameters, representing the neurons' underlying properties. The parameter estimation problem seeks to recover those parameters of a single…

Neurons and Cognition · Quantitative Biology 2022-10-05 Long Le , Yao Li

A vast majority of computation in the brain is performed by spiking neural networks. Despite the ubiquity of such spiking, we currently lack an understanding of how biological spiking neural circuits learn and compute in-vivo, as well as…

Neurons and Cognition · Quantitative Biology 2018-05-31 Friedemann Zenke , Surya Ganguli

Cognitive neuroscience is fragmented into specialized models, each tailored to specific experimental paradigms, hence preventing a unified model of cognition in the human brain. Here, we introduce TRIBE v2, a tri-modal (video, audio and…

A reliable foundation model of functional neuroimages is critical to promote clinical applications where the performance of current AI models is significantly impeded by a limited sample size. To that end, tremendous efforts have been made…

Machine Learning · Computer Science 2025-10-23 Ziquan Wei , Tingting Dan , Guorong Wu
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