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While large language models (LLMs) have been successfully applied to various tasks, they still face challenges with hallucinations. Augmenting LLMs with domain-specific tools such as database utilities can facilitate easier and more precise…

计算与语言 · 计算机科学 2024-04-10 Qiao Jin , Yifan Yang , Qingyu Chen , Zhiyong Lu

Purpose: To introduce the concept of using large language models (LLMs) to re-label structure names in accordance with the American Association of Physicists in Medicine (AAPM) Task Group (TG)-263 standard, and to establish a benchmark for…

Statistical analysis of evolutionary-related protein sequences provides insights about their structure, function, and history. We show that Restricted Boltzmann Machines (RBM), designed to learn complex high-dimensional data and their…

定量方法 · 定量生物学 2019-02-28 Jérôme Tubiana , Simona Cocco , Rémi Monasson

Deep cognitive attention is characterized by heightened gamma oscillations and coordinated visual behavior. Despite the physiological importance of these mechanisms, computational studies rarely synthesize these modalities or identify the…

神经元与认知 · 定量生物学 2026-01-13 Sobhana Jahan , Saydul Akbar Murad , Nick Rahimi , Noorbakhsh Amiri Golilarz

This work explores the challenge of building ``Machines that Can Remember'', framing long-term memory as the problem of efficient ultra-long context modeling. We argue that this requires three key properties: \textbf{sparsity},…

计算与语言 · 计算机科学 2025-12-01 Xiang Hu , Zhanchao Zhou , Ruiqi Liang , Zehuan Li , Wei Wu , Jianguo Li

Despite recent progress in time-series foundation models, challenges persist in improving representation learning and adapting to diverse downstream tasks. We introduce a General Time-series Model (GTM), which advances representation…

机器学习 · 计算机科学 2026-03-13 Cheng He , Xu Huang , Gangwei Jiang , Zhaoyi Li , Defu Lian , Hong Xie , Enhong Chen , Xijie Liang , Zengrong Zheng , Patrick P. C. Lee

Processing global geometric context while preserving equivariance is crucial when modeling biological, chemical, and physical systems. Yet, this is challenging due to the computational demands of equivariance and global context at scale.…

机器学习 · 计算机科学 2025-05-29 Artem Moskalev , Mangal Prakash , Junjie Xu , Tianyu Cui , Rui Liao , Tommaso Mansi

Genetic programming (GP) has the potential to generate explainable results, especially when used for dimensionality reduction. In this research, we investigate the potential of leveraging eXplainable AI (XAI) and large language models…

神经与进化计算 · 计算机科学 2024-03-07 Paula Maddigan , Andrew Lensen , Bing Xue

Large language models (LLMs) now support context windows of hundreds of thousands to millions of tokens, enabling applications such as long-document summarization, large-scale code synthesis, multi-document question answering and persistent…

计算与语言 · 计算机科学 2025-10-22 Siyuan Yan , Guo-Qing Jiang , Yuchen Zhang , Xiaoxing Ma , Ran Zhu , Chun Cao , Jingwei Xu

Advanced automated AI techniques allow us to classify protein sequences and discern their biological families and functions. Conventional approaches for classifying these protein families often focus on extracting N-Gram features from the…

定量方法 · 定量生物学 2024-10-24 Bahar Ali , Anwar Shah , Malik Niaz , Musadaq Mansoord , Sami Ullah , Muhammad Adnan

Current deep learning models are mostly task specific and lack a user-friendly interface to operate. We present Meta-EyeFM, a multi-function foundation model that integrates a large language model (LLM) with vision foundation models (VFMs)…

Large language models (LLMs) can simulate clinical reasoning based on natural language prompts, but their utility in ophthalmology is largely unexplored. This study evaluated GPT-4's ability to interpret structured textual descriptions of…

This study investigates small-scale pretraining for Small Language Models (SLMs) to enable efficient use of limited data and compute, improve accessibility in low-resource settings and reduce costs. To enhance long-context extrapolation in…

机器学习 · 计算机科学 2026-01-01 Ruizhe Huang , Kexuan Zhang , Yihao Fang , Baifeng Yu

Diffusion models have exhibited substantial success in text-to-image generation. However, they often encounter challenges when dealing with complex and dense prompts involving multiple objects, attribute binding, and long descriptions. In…

计算机视觉与模式识别 · 计算机科学 2024-08-28 Mushui Liu , Yuhang Ma , Yang Zhen , Jun Dan , Yunlong Yu , Zeng Zhao , Zhipeng Hu , Bai Liu , Changjie Fan

Large language models (LLMs) have demonstrated remarkable performance across a wide range of tasks. However, the quadratic complexity of softmax attention remains a central bottleneck that limits their scalability. Alman and Song (NeurIPS…

机器学习 · 计算机科学 2026-03-20 Maryam Aliakbarpour , Vladimir Braverman , Junze Yin , Haochen Zhang

Effective attention modules have played a crucial role in the success of Transformer-based large language models (LLMs), but the quadratic time and memory complexities of these attention modules also pose a challenge when processing long…

分布式、并行与集群计算 · 计算机科学 2024-06-07 Ao Sun , Weilin Zhao , Xu Han , Cheng Yang , Zhiyuan Liu , Chuan Shi , Maosong Sun

Large Language Models (LLMs) face efficiency bottlenecks due to the quadratic complexity of the attention mechanism when processing long contexts. Sparse attention methods offer a promising solution, but existing approaches often suffer…

计算与语言 · 计算机科学 2025-03-06 Lida Chen , Dong Xu , Chenxin An , Xintao Wang , Yikai Zhang , Jiangjie Chen , Zujie Liang , Feng Wei , Jiaqing Liang , Yanghua Xiao , Wei Wang

Using Large Language Models (LLMs) to process graph-structured data is an active research area, yet current state-of-the-art approaches typically rely on multi-step pipelines with Graph Neural Network (GNN) encoders that compress rich…

机器学习 · 计算机科学 2026-05-12 Dario Vajda

The ability of Large Language Models (LLMs) to process and generate coherent text is markedly weakened when the number of input tokens exceeds their pretraining length. Given the expensive overhead of finetuning large-scale models with…

计算与语言 · 计算机科学 2024-05-30 Chenxin An , Fei Huang , Jun Zhang , Shansan Gong , Xipeng Qiu , Chang Zhou , Lingpeng Kong