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Understanding how cellular morphology, gene expression, and spatial context jointly shape tissue function is a central challenge in biology. Image-based spatial transcriptomics technologies now provide high-resolution measurements of cell…

Quantitative Methods · Quantitative Biology 2026-02-17 Zhenglun Kong , Mufan Qiu , John Boesen , Xiang Lin , Sukwon Yun , Tianlong Chen , Manolis Kellis , Marinka Zitnik

Learning faithful graph representations as sets of vertex embeddings has become a fundamental intermediary step in a wide range of machine learning applications. The quality of the embeddings is usually determined by how well the geometry…

Machine Learning · Computer Science 2021-05-13 Federico López , Beatrice Pozzetti , Steve Trettel , Anna Wienhard

Quantifying similarity between neural representations -- e.g. hidden layer activation vectors -- is a perennial problem in deep learning and neuroscience research. Existing methods compare deterministic responses (e.g. artificial networks…

Machine Learning · Computer Science 2023-02-07 Lyndon R. Duong , Jingyang Zhou , Josue Nassar , Jules Berman , Jeroen Olieslagers , Alex H. Williams

Similarity measures are widely used to interpret the representational geometries used by neural networks to solve tasks. Yet, because existing methods compare the extrinsic geometry of representations in state space, rather than their…

Machine Learning · Computer Science 2026-04-03 N Alex Cayco-Gajic , Arthur Pellegrino

Recent advances in generic large models, such as GPT and DeepSeek, have motivated the introduction of universality to graph pre-training, aiming to learn rich and generalizable knowledge across diverse domains using graph representations to…

Machine Learning · Computer Science 2026-02-27 Lianze Shan , Jitao Zhao , Dongxiao He , Siqi Liu , Jiaxu Cui , Weixiong Zhang

Latent space models are widely used for analyzing high-dimensional discrete data matrices, such as patient-feature matrices in electronic health records (EHRs), by capturing complex dependence structures through low-dimensional embeddings.…

Machine Learning · Computer Science 2026-02-19 Weijing Tang , Ming Yuan , Zongqi Xia , Tianxi Cai

There is a recent surge of interest in cross-modal representation learning corresponding to images and text. The main challenge lies in mapping images and text to a shared latent space where the embeddings corresponding to a similar…

Computer Vision and Pattern Recognition · Computer Science 2019-11-15 Pradyumna Narayana , Aniket Pednekar , Abishek Krishnamoorthy , Kazoo Sone , Sugato Basu

Despite the ubiquity of large language models (LLMs) in AI research, the question of embodiment in LLMs remains underexplored, distinguishing them from embodied systems in robotics where sensory perception directly informs physical action.…

Computation and Language · Computer Science 2024-05-28 Philipp Wicke , Lennart Wachowiak

We propose a method to facilitate exploration and analysis of new large data sets. In particular, we give an unsupervised deep learning approach to learning a latent representation that captures semantic similarity in the data set. The core…

Computer Vision and Pattern Recognition · Computer Science 2020-12-23 Gary B Huang , Huei-Fang Yang , Shin-ya Takemura , Pat Rivlin , Stephen M Plaza

Despite the remarkable success of large large-scale neural networks, we still lack unified notation for thinking about and describing their representational spaces. We lack methods to reliably describe how their representations are…

Machine Learning · Computer Science 2025-06-02 Henry Conklin

Traditional neural embeddings represent concepts as points, excelling at similarity but struggling with higher-level reasoning and asymmetric relationships. We introduce a novel paradigm: embedding concepts as linear subspaces. This…

Machine Learning · Computer Science 2025-08-26 Gabriel Moreira , Zita Marinho , Manuel Marques , João Paulo Costeira , Chenyan Xiong

Understanding how neural representations respond to geometric transformations is essential for evaluating whether learned features preserve meaningful spatial structure. Existing approaches primarily assess robustness primarily by comparing…

Machine Learning · Computer Science 2026-05-12 Huahua Lin , Katayoun Farrahi , Xiaohao Cai

We present a novel technique for learning semantic representations, which extends the distributional hypothesis to multilingual data and joint-space embeddings. Our models leverage parallel data and learn to strongly align the embeddings of…

Computation and Language · Computer Science 2014-04-21 Karl Moritz Hermann , Phil Blunsom

The recent rapid development of Large Vision-Language Models (LVLMs) has indicated their potential for embodied tasks.However, the critical skill of spatial understanding in embodied environments has not been thoroughly evaluated, leaving…

Artificial Intelligence · Computer Science 2024-06-11 Mengfei Du , Binhao Wu , Zejun Li , Xuanjing Huang , Zhongyu Wei

Neural network weights are typically viewed as the end product of training, while most deep learning research focuses on data, features, and architectures. However, recent advances show that the set of all possible weight values (weight…

Machine Learning · Computer Science 2026-03-12 Xiaolong Han , Zehong Wang , Bo Zhao , Binchi Zhang , Jundong Li , Damian Borth , Rose Yu , Haggai Maron , Yanfang Ye , Lu Yin , Ferrante Neri

While mel-spectrograms have been widely utilized as intermediate representations in zero-shot text-to-speech (TTS), their inherent redundancy leads to inefficiency in learning text-speech alignment. Compact VAE-based latent representations…

Audio and Speech Processing · Electrical Eng. & Systems 2025-12-02 Zhikang Niu , Shujie Hu , Jeongsoo Choi , Yushen Chen , Peining Chen , Pengcheng Zhu , Yunting Yang , Bowen Zhang , Jian Zhao , Chunhui Wang , Xie Chen

Layout-guided text-to-image models offer greater control over the generation process by explicitly conditioning image synthesis on the spatial arrangement of elements. As a result, their adoption has increased in many computer vision…

Computer Vision and Pattern Recognition · Computer Science 2025-08-19 Elena Izzo , Luca Parolari , Davide Vezzaro , Lamberto Ballan

Deep Learning (DL) has attracted a lot of attention for its ability to reach state-of-the-art performance in many machine learning tasks. The core principle of DL methods consists in training composite architectures in an end-to-end…

Machine Learning · Computer Science 2020-11-17 Carlos Lassance , Vincent Gripon , Antonio Ortega

Humans can effortlessly describe what they see, yet establishing a shared representational format between vision and language remains a significant challenge. Emerging evidence suggests that human brain representations in both vision and…

Neurons and Cognition · Quantitative Biology 2025-07-30 Katerina Marie Simkova , Adrien Doerig , Clayton Hickey , Ian Charest

Semantic information in embodied AI is inherently multi-source and multi-stage, making it challenging to fully leverage for achieving stable perception-to-action loops in real-world environments. Early studies have combined manual…

Computer Vision and Pattern Recognition · Computer Science 2026-01-15 Shuai Chen , Hao Chen , Yuanchen Bei , Tianyang Zhao , Zhibo Zhou , Feiran Huang