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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

Designing de-novo molecules with desired property profiles requires efficient exploration of the vast chemical space ranging from $10^{23}$ to $10^{60}$ possible synthesizable candidates. While various deep generative models have been…

Machine Learning · Computer Science 2025-08-25 Kamran Chitsaz , Roshan Balaji , Quentin Fournier , Nirav Pravinbhai Bhatt , Sarath Chandar

Machine translation is indispensable in healthcare for enabling the global dissemination of medical knowledge across languages. However, complex medical terminology poses unique challenges to achieving adequate translation quality and…

Computation and Language · Computer Science 2024-07-29 Bunyamin Keles , Murat Gunay , Serdar I. Caglar

Pretrained language models (PTLMs) are typically learned over a large, static corpus and further fine-tuned for various downstream tasks. However, when deployed in the real world, a PTLM-based model must deal with data distributions that…

Computation and Language · Computer Science 2022-07-20 Xisen Jin , Dejiao Zhang , Henghui Zhu , Wei Xiao , Shang-Wen Li , Xiaokai Wei , Andrew Arnold , Xiang Ren

Large Language Models (LLMs) are pretrained on extensive multilingual corpora to acquire both language-specific cultural knowledge and general knowledge. Ideally, while LLMs should provide consistent responses to culture-independent…

Computation and Language · Computer Science 2025-02-11 Yumeng Wang , Zhiyuan Fan , Qingyun Wang , May Fung , Heng Ji

Fine-tuning pre-trained large language models (LLMs) on a diverse array of tasks has become a common approach for building models that can solve various natural language processing (NLP) tasks. However, where and to what extent these models…

Computation and Language · Computer Science 2024-10-29 Zheng Zhao , Yftah Ziser , Shay B. Cohen

We introduce a new pretraining approach geared for multi-document language modeling, incorporating two key ideas into the masked language modeling self-supervised objective. First, instead of considering documents in isolation, we pretrain…

Computation and Language · Computer Science 2021-09-06 Avi Caciularu , Arman Cohan , Iz Beltagy , Matthew E. Peters , Arie Cattan , Ido Dagan

Most biomedical pretrained language models are monolingual and cannot handle the growing cross-lingual requirements. The scarcity of non-English domain corpora, not to mention parallel data, poses a significant hurdle in training…

Computation and Language · Computer Science 2023-11-21 Lei Geng , Xu Yan , Ziqiang Cao , Juntao Li , Wenjie Li , Sujian Li , Xinjie Zhou , Yang Yang , Jun Zhang

Developing therapeutics is a lengthy and expensive process that requires the satisfaction of many different criteria, and AI models capable of expediting the process would be invaluable. However, the majority of current AI approaches…

With the advancement of Large Language Model (LLM) for natural language processing, this paper presents an intriguing finding: a frozen pre-trained LLM layer can process visual tokens for medical image segmentation tasks. Specifically, we…

Computer Vision and Pattern Recognition · Computer Science 2025-06-24 Fenghe Tang , Wenxin Ma , Zhiyang He , Xiaodong Tao , Zihang Jiang , S. Kevin Zhou

With the widespread of digital environments, reliable authentication and continuous access control has become crucial. It can minimize cyber attacks and prevent frauds, specially those associated with identity theft. A particular interest…

Cryptography and Security · Computer Science 2024-11-12 Matheus Simão , Fabiano Prado , Omar Abdul Wahab , Anderson Avila

Understanding cell identity is an important task in many biomedical areas. Expression patterns of specific marker genes have been used to characterize some limited cell types, but exclusive markers are not available for many cell types. A…

In-context learning (ICL) i.e. showing LLMs only a few task-specific demonstrations has led to downstream gains with no task-specific fine-tuning required. However, LLMs are sensitive to the choice of prompts, and therefore a crucial…

Computation and Language · Computer Science 2024-01-31 Lingyu Gao , Aditi Chaudhary , Krishna Srinivasan , Kazuma Hashimoto , Karthik Raman , Michael Bendersky

A prominent achievement of natural language processing (NLP) is its ability to understand and generate meaningful human language. This capability relies on complex feedforward transformer block architectures pre-trained on large language…

Computation and Language · Computer Science 2025-11-11 Ronit D. Gross , Yarden Tzach , Tal Halevi , Ella Koresh , Ido Kanter

Cell-cell communication is essential for tissue development, regeneration and function, and its disruption can lead to diseases and developmental abnormalities. The revolution of single-cell genomics technologies offers unprecedented…

Speech understanding is essential for interpreting the diverse forms of information embedded in spoken language, including linguistic, paralinguistic, and non-linguistic cues that are vital for effective human-computer interaction. The…

Audio and Speech Processing · Electrical Eng. & Systems 2025-12-08 Jing Peng , Yucheng Wang , Bohan Li , Yiwei Guo , Hankun Wang , Yangui Fang , Yu Xi , Haoyu Li , Xu Li , Ke Zhang , Shuai Wang , Kai Yu

Currently, large language models (LLMs) predominantly focus on the text modality. To enable more natural human-AI interaction, speech LLMs are emerging, but building effective end-to-end speech LLMs remains challenging due to limited data…

Computation and Language · Computer Science 2026-04-14 Yan Zhou , Qingkai Fang , Yun Hong , Yang Feng

Most research on lifelong learning applies to images or games, but not language. We present LAMOL, a simple yet effective method for lifelong language learning (LLL) based on language modeling. LAMOL replays pseudo-samples of previous tasks…

Computation and Language · Computer Science 2019-12-24 Fan-Keng Sun , Cheng-Hao Ho , Hung-Yi Lee

Due to limited supervised training data, large language models (LLMs) are typically pre-trained via a self-supervised "predict the next word" objective on a vast amount of unstructured text data. To make the resulting model useful to users,…

Computation and Language · Computer Science 2026-01-30 Ajay Patel , Colin Raffel , Chris Callison-Burch

Foundation models have revolutionized natural language processing and artificial intelligence, significantly enhancing how machines comprehend and generate human languages. Inspired by the success of these foundation models, researchers…

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