Spatial transcriptomics captures molecular states within cells and their organisation in tissue. However, integrating fine-grained gene information with spatial context at scale remains challenging for existing foundation models. Here we present NexuST, a hierarchical foundation model that repeatedly interleaves gene-l...
Hai-Ping Liu, Qian Zhao, Li-Jing Lin et al.· bioRxiv· 0 citations
Electroencephalography (EEG) is recorded continuously over hours, with relevant dynamics spanning timescales from milliseconds to hours. Most EEG foundation models nevertheless process fixed windows independently, limiting their ability to capture information encoded in long-timescale dynamics. State-space architecture...
Yi-Fan Wang, Hai-Ping Liu, Yang Cui et al.· 0 citations
Prospective Multimodal Memory Compilation is proposed, a framework that shifts part of the memory reasoning process from query time to memory consolidation time and improves answer quality and visual evidence recall while reducing query-time token and latency costs.
Jing-Yu Sun, Yang Lin, Yuyang Xue et al.· 1 citation
It is shown that latent-space predictive pretraining can provide a scalable route to foundation models for spatial transcriptomics and introduces CellWorld, which predicts the latent representations of masked cells from visible spatial context and a limited partial-expression hint.
Hai-Ping Liu, Qian Zhao, Li-Jing Lin et al.· 0 citations
This review systematically analyzes the emerging landscape of FMs in omics research, spanning sequence modeling, cell state characterization, and multimodal integration, and proposes a roadmap for the next generation of FMs, advocating for architectures that move beyond statistical correlation to incorporate causal rea...
Haozhe Liu, Wenhao Cai, Yizheng Sun et al.· Briefings in Bioinformatics· 0 citations
TrajWiki is proposed, a trajectory-based memory framework for long-horizon conversational agents that improves long-horizon dialogue performance across both open-source and closed-source LLM backbones, while providing greater interpretability and diagnostic visibility into memory evolution, retrieval failures, and answ...
Jingyu Sun, Yuyang Xue, Ming-Yang Li et al.· 0 citations
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