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Recent developments in Natural Language Processing (NLP) demonstrate that large-scale, self-supervised pre-training can be extremely beneficial for downstream tasks. These ideas have been adapted to other domains, including the analysis of…

Computation and Language · Computer Science 2021-02-02 Matthew B. A. McDermott , Brendan Yap , Harry Hsu , Di Jin , Peter Szolovits

Large language models (LLMs) are becoming increasingly better at a wide range of Natural Language Processing tasks (NLP), such as text generation and understanding. Recently, these models have extended their capabilities to coding tasks,…

Machine Learning · Computer Science 2024-10-23 Nishat Raihan , Mohammed Latif Siddiq , Joanna C. S. Santos , Marcos Zampieri

The COVID-19 has brought about a significant challenge to the whole of humanity, but with a special burden upon the medical community. Clinicians must keep updated continuously about symptoms, diagnoses, and effectiveness of emergent…

Computation and Language · Computer Science 2020-12-02 Andres Carvallo , Denis Parra , Gabriel Rada , Daniel Perez , Juan Ignacio Vasquez , Camilo Vergara

Personality detection aims to detect one's personality traits underlying in social media posts. One challenge of this task is the scarcity of ground-truth personality traits which are collected from self-report questionnaires. Most existing…

Computation and Language · Computer Science 2024-03-13 Linmei Hu , Hongyu He , Duokang Wang , Ziwang Zhao , Yingxia Shao , Liqiang Nie

The integration of Large Language Models (LLMs) into the drug discovery and development field marks a significant paradigm shift, offering novel methodologies for understanding disease mechanisms, facilitating drug discovery, and optimizing…

Quantitative Methods · Quantitative Biology 2024-09-10 Yizhen Zheng , Huan Yee Koh , Maddie Yang , Li Li , Lauren T. May , Geoffrey I. Webb , Shirui Pan , George Church

Large language models (LLMs) are becoming increasingly important for machine learning applications. However, it can be challenging to align LLMs with our intent, particularly when we want to generate content that is preferable over others…

Computation and Language · Computer Science 2024-04-09 Xiang Gao , Kamalika Das

Computational prediction of the interaction of T cell receptors (TCRs) and their ligands is a grand challenge in immunology. Despite advances in high-throughput assays, specificity-labelled TCR data remains sparse. In other domains, the…

The application of deep learning methods, particularly foundation models, in biological research has surged in recent years. These models can be text-based or trained on underlying biological data, especially omics data of various types.…

Artificial Intelligence · Computer Science 2024-12-06 Yoav Kan-Tor , Michael Morris Danziger , Eden Zohar , Matan Ninio , Yishai Shimoni

The rapid evolution of malware variants requires robust classification methods to enhance cybersecurity. While Large Language Models (LLMs) offer potential for generating malware descriptions to aid family classification, their utility is…

Cryptography and Security · Computer Science 2025-05-01 Ivan Montoya Sanchez , Shaswata Mitra , Aritran Piplai , Sudip Mittal

Pre-trained large language models (LLM) have emerged as a powerful tool for simulating various scenarios and generating output given specific instructions and multimodal input. In this work, we analyze the specific use of LLM to enhance a…

Machine Learning · Computer Science 2024-05-10 Yuhang Wu , Yingfei Wang , Chu Wang , Zeyu Zheng

Understanding cell identity and function through single-cell level sequencing data remains a key challenge in computational biology. We present a novel framework that leverages gene-specific textual annotations from the NCBI Gene database…

Genomics · Quantitative Biology 2025-05-14 Douglas Jiang , Zilin Dai , Luxuan Zhang , Qiyi Yu , Haoqi Sun , Feng Tian

We propose an alternate approach to quantifying how well language models learn natural language: we ask how well they match the statistical tendencies of natural language. To answer this question, we analyze whether text generated from…

Computation and Language · Computer Science 2021-08-31 Clara Meister , Ryan Cotterell

Large Language Models (LLMs) have the potential to accelerate small molecule drug design due to their ability to reason about information from diverse sources and formats. However, their practical utility remains unclear due to the lack of…

Large-scale language models achieved state-of-the-art performance over a number of language tasks. However, they fail on adversarial language examples, which are sentences optimized to fool the language models but with similar semantic…

Computation and Language · Computer Science 2023-10-31 Noah Thomas McDermott , Junfeng Yang , Chengzhi Mao

The paradigm of large language models in natural language processing (NLP) has also shown promise in modeling biological languages, including proteins, RNA, and DNA. Both the auto-regressive generation paradigm and evaluation metrics have…

Biomolecules · Quantitative Biology 2025-07-04 Ke Liu , Shuaike Shen , Hao Chen

The emergence of Large Language Models (LLMs) has achieved tremendous success in the field of Natural Language Processing owing to diverse training paradigms that empower LLMs to effectively capture intricate linguistic patterns and…

Information Retrieval · Computer Science 2024-07-04 Lemei Zhang , Peng Liu , Yashar Deldjoo , Yong Zheng , Jon Atle Gulla

While Large Language Models show remarkable performance in natural language understanding, their resource-intensive nature makes them less accessible. In contrast, smaller language models such as MiniCPM offer more sustainable scalability,…

Computation and Language · Computer Science 2024-08-05 Trapoom Ukarapol , Zhicheng Lee , Amy Xin

Large Language Models (LLMs) have recently emerged as powerful tools in cybersecurity, offering advanced capabilities in malware detection, generation, and real-time monitoring. Numerous studies have explored their application in…

Cryptography and Security · Computer Science 2025-04-11 Hamed Jelodar , Samita Bai , Parisa Hamedi , Hesamodin Mohammadian , Roozbeh Razavi-Far , Ali Ghorbani

Large language models (LLMs) are beginning to reshape how chemists plan and run reactions in organic synthesis. Trained on millions of reported transformations, these text-based models can propose synthetic routes, forecast reaction…

Artificial Intelligence · Computer Science 2025-08-08 Kartar Kumar Lohana Tharwani , Rajesh Kumar , Sumita , Numan Ahmed , Yong Tang

Pre-trained LLMs have demonstrated substantial capabilities across a range of conventional natural language processing (NLP) tasks, such as summarization and entity recognition. In this paper, we explore the application of LLMs in the…

Quantitative Methods · Quantitative Biology 2024-08-14 Kamyar Zeinalipour , Neda Jamshidi , Monica Bianchini , Marco Maggini , Marco Gori