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Transformer-based Large Language Models (LLMs) have been applied in diverse areas such as knowledge bases, human interfaces, and dynamic agents, and marking a stride towards achieving Artificial General Intelligence (AGI). However, current…

Computation and Language · Computer Science 2024-02-27 Yunpeng Huang , Jingwei Xu , Junyu Lai , Zixu Jiang , Taolue Chen , Zenan Li , Yuan Yao , Xiaoxing Ma , Lijuan Yang , Hao Chen , Shupeng Li , Penghao Zhao

Efforts to apply transformer-based language models (TLMs) to the problem of reasoning in natural language have enjoyed ever-increasing success in recent years. The most fundamental task in this area to which nearly all others can be reduced…

Computation and Language · Computer Science 2025-08-26 Tharindu Madusanka , Ian Pratt-Hartmann , Riza Batista-Navarro

Tabular data, a prevalent data type across various domains, presents unique challenges due to its heterogeneous nature and complex structural relationships. Achieving high predictive performance and robustness in tabular data analysis holds…

Computation and Language · Computer Science 2024-08-21 Yucheng Ruan , Xiang Lan , Jingying Ma , Yizhi Dong , Kai He , Mengling Feng

Language is typically modelled with discrete sequences. However, the most successful approaches to language modelling, namely neural networks, are continuous and smooth function approximators. In this work, we show that Transformer-based…

Computation and Language · Computer Science 2025-04-08 Samuele Marro , Davide Evangelista , X. Angelo Huang , Emanuele La Malfa , Michele Lombardi , Michael Wooldridge

The increasing adoption of natural language processing (NLP) models across industries has led to practitioners' need for machine learning systems to handle these models efficiently, from training to serving them in production. However,…

Computation and Language · Computer Science 2023-08-17 Lovre Torbarina , Tin Ferkovic , Lukasz Roguski , Velimir Mihelcic , Bruno Sarlija , Zeljko Kraljevic

Natural languages are believed to be (mildly) context-sensitive. Despite underpinning remarkably capable large language models, transformers are unable to model many context-free language tasks. In an attempt to address this limitation in…

Computation and Language · Computer Science 2024-05-15 Jiaoda Li , Jennifer C. White , Mrinmaya Sachan , Ryan Cotterell

Large Language Models (LLMs) have recently demonstrated remarkable capabilities in natural language processing tasks and beyond. This success of LLMs has led to a large influx of research contributions in this direction. These works…

Computation and Language · Computer Science 2024-10-18 Humza Naveed , Asad Ullah Khan , Shi Qiu , Muhammad Saqib , Saeed Anwar , Muhammad Usman , Naveed Akhtar , Nick Barnes , Ajmal Mian

The development of single-cell and spatial transcriptomics has revolutionized our capacity to investigate cellular properties, functions, and interactions in both cellular and spatial contexts. However, the analysis of single-cell and…

Genomics · Quantitative Biology 2024-12-09 Shuang Ge , Shuqing Sun , Huan Xu , Qiang Cheng , Zhixiang Ren

Large Language Models (LLMs) have achieved remarkable success across a wide array of tasks. Due to the impressive planning and reasoning abilities of LLMs, they have been used as autonomous agents to do many tasks automatically. Recently,…

Computation and Language · Computer Science 2024-04-22 Taicheng Guo , Xiuying Chen , Yaqi Wang , Ruidi Chang , Shichao Pei , Nitesh V. Chawla , Olaf Wiest , Xiangliang Zhang

Gene regulation is a dynamic process that connects genotype and phenotype. Given the difficulty of physically mapping mammalian gene circuitry, we require new computational methods to learn regulatory rules. Natural language is a valuable…

Quantitative Methods · Quantitative Biology 2022-10-27 William Connell , Umair Khan , Michael J. Keiser

Recent advances in large language models (LLMs) have substantially improved single-turn task performance, yet real-world applications increasingly demand sophisticated multi-turn interactions. This survey provides a comprehensive review of…

Computation and Language · Computer Science 2026-04-21 Yubo Li , Xiaobin Shen , Yidi Miao , Xinyu Yao , Xueying Ding , Ramayya Krishnan , Rema Padman

State-of-the-art deep-learning-based approaches to Natural Language Processing (NLP) are credited with various capabilities that involve reasoning with natural language texts. In this paper we carry out a large-scale empirical study…

Computation and Language · Computer Science 2022-11-11 Viktor Schlegel , Kamen V. Pavlov , Ian Pratt-Hartmann

Transformer model architectures have garnered immense interest lately due to their effectiveness across a range of domains like language, vision and reinforcement learning. In the field of natural language processing for example,…

Machine Learning · Computer Science 2022-03-15 Yi Tay , Mostafa Dehghani , Dara Bahri , Donald Metzler

Despite the extensive success of pretrained language models as encoders for building NLP systems, they haven't seen prominence as decoders for sequence generation tasks. We explore the question of whether these models can be adapted to be…

Computation and Language · Computer Science 2020-08-21 Nishant Subramani , Nivedita Suresh

Generative AI, in particular large transformer models, are increasingly driving HPC system design in science and industry. We analyze performance characteristics of such transformer models and discuss their sensitivity to the transformer…

Large language models (LLMs) have shown strong ability in generating rich representations across domains such as natural language processing and generation, computer vision, and multimodal learning. However, their application in biomedical…

Genomics · Quantitative Biology 2025-09-30 Luxuan Zhang , Douglas Jiang , Qinglong Wang , Haoqi Sun , Feng Tian

With the rapid development of AI technology in recent years, there have been many studies with deep learning models in soft sensing area. However, the models have become more complex, yet, the data sets remain limited: researchers are…

Machine Learning · Computer Science 2022-01-25 Chao Zhang , Jaswanth Yella , Yu Huang , Xiaoye Qian , Sergei Petrov , Andrey Rzhetsky , Sthitie Bom

Recent advancements in large language models have demonstrated that extended inference through techniques can markedly improve performance, yet these gains come with increased computational costs and the propagation of inherent biases found…

Computation and Language · Computer Science 2025-02-10 Edward Hong Wang , Cynthia Xin Wen

At the intersection of the rapidly growing biological data landscape and advancements in Natural Language Processing (NLP), protein language models (PLMs) have emerged as a transformative force in modern research. These models have achieved…

Biomolecules · Quantitative Biology 2025-02-12 Lei Wang , Xudong Li , Han Zhang , Jinyi Wang , Dingkang Jiang , Zhidong Xue , Yan Wang

Transformers have been at the heart of the Natural Language Processing (NLP) and Computer Vision (CV) revolutions. The significant success in NLP and CV inspired exploring the use of Transformers in point cloud processing. However, how do…

Computer Vision and Pattern Recognition · Computer Science 2022-09-22 Dening Lu , Qian Xie , Mingqiang Wei , Kyle Gao , Linlin Xu , Jonathan Li