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Large language models (LLMs) and emerging agentic frameworks are beginning to transform single-cell biology by enabling natural-language reasoning, generative annotation, and multimodal data integration. However, progress remains fragmented…

With the rapid evolution of Natural Language Processing (NLP), Large Language Models (LLMs) like ChatGPT have emerged as powerful tools capable of transforming various sectors. Their vast knowledge base and dynamic interaction capabilities…

计算机与社会 · 计算机科学 2024-01-02 Kevin Wang , Jason Ramos , Ramon Lawrence

In recent years, single cell RNA sequencing has become a widely used technique to study cellular diversity and function. However, accurately annotating cell types from single cell data has been a challenging task, as it requires extensive…

基因组学 · 定量生物学 2023-04-07 Zehua Zeng , Hongwu Du

Recent studies have demonstrated the feasibility of modeling single-cell data as natural languages and the potential of leveraging powerful large language models (LLMs) for understanding cell biology. However, a comprehensive evaluation of…

定量方法 · 定量生物学 2025-05-14 Fan Zhang , Tianyu Liu , Zhihong Zhu , Hao Wu , Haixin Wang , Donghao Zhou , Yefeng Zheng , Kun Wang , Xian Wu , Pheng-Ann Heng

The transformers have achieved significant accomplishments in the natural language processing as its outstanding parallel processing capabilities and highly flexible attention mechanism. In addition, increasing studies based on transformers…

计算与语言 · 计算机科学 2024-07-19 Wei Lan , Guohang He , Mingyang Liu , Qingfeng Chen , Junyue Cao , Wei Peng

As large language models (LLMs) become increasingly prevalent, understanding human-LLM interactions is emerging as a central priority in psychological research. Online experiments offer an efficient means to study human-LLM interactions,…

人机交互 · 计算机科学 2025-11-27 R. Bermudez Schettino , A. Dasmeh , L. Brinkmann

In recent times, the grandeur of Large Language Models (LLMs) has not only shone in the realm of natural language processing but has also cast its brilliance across a vast array of applications. This remarkable display of LLM capabilities…

计算与语言 · 计算机科学 2024-03-22 Hanieh Alipour , Nick Pendar , Kohinoor Roy

Large language models (LLMs) are transforming cellular biology by enabling the development of "virtual cells"--computational systems that represent, predict, and reason about cellular states and behaviors. This work provides a comprehensive…

计算与语言 · 计算机科学 2025-10-10 Krinos Li , Xianglu Xiao , Shenglong Deng , Lucas He , Zijun Zhong , Yuanjie Zou , Zhonghao Zhan , Zheng Hui , Weiye Bao , Guang Yang

Natural language is expected to be a key medium for various human-machine interactions in the era of large language models. When it comes to the biochemistry field, a series of tasks around molecules (e.g., property prediction, molecule…

计算与语言 · 计算机科学 2023-06-22 Zheni Zeng , Bangchen Yin , Shipeng Wang , Jiarui Liu , Cheng Yang , Haishen Yao , Xingzhi Sun , Maosong Sun , Guotong Xie , Zhiyuan Liu

Large Language Models (LLMs), such as ChatGPT, have taken the world by storm and have passed certain forms of the Turing test. However, LLMs are not limited to human language and analyze sequential data, such as DNA, protein, and gene…

基因组学 · 定量生物学 2024-01-08 Hilbert Yuen In Lam , Xing Er Ong , Marek Mutwil

The rapid advancement of Artificial Intelligence has resulted in the advent of Large Language Models (LLMs) with the capacity to produce text that closely resembles human communication. These models have been seamlessly integrated into…

机器学习 · 计算机科学 2025-02-04 Zenon Lamprou , Yashar Moshfeghi

Scientific workflow systems are increasingly popular for expressing and executing complex data analysis pipelines over large datasets, as they offer reproducibility, dependability, and scalability of analyses by automatic parallelization on…

分布式、并行与集群计算 · 计算机科学 2024-07-09 Mario Sänger , Ninon De Mecquenem , Katarzyna Ewa Lewińska , Vasilis Bountris , Fabian Lehmann , Ulf Leser , Thomas Kosch

Cell identity encompasses various semantic aspects of a cell, including cell type, pathway information, disease information, and more, which are essential for biologists to gain insights into its biological characteristics. Understanding…

基因组学 · 定量生物学 2024-06-12 Suyuan Zhao , Jiahuan Zhang , Yushuai Wu , Yizhen Luo , Zaiqing Nie

Single-cell analysis is currently one of the most high-resolution techniques to study biology. The large complex datasets that have been generated have spurred numerous developments in computational biology, in particular the use of…

基因组学 · 定量生物学 2023-04-27 Ionut Sebastian Mihai , Sarang Chafle , Johan Henriksson

ChatGPT has drawn considerable attention from both the general public and domain experts with its remarkable text generation capabilities. This has subsequently led to the emergence of diverse applications in the field of biomedicine and…

Large Language Models (LLMs) have revo lutionized natural language processing Natural Language Processing (NLP), with Chat Generative Pre-trained Transformer (ChatGPT) standing out as a notable exampledue to its advanced capabilities and…

计算与语言 · 计算机科学 2025-03-25 Azim Akhtarshenas , Afshin Dini , Navid Ayoobi

ChatGPT and other state-of-the-art large language models (LLMs) are rapidly transforming multiple fields, offering powerful tools for a wide range of applications. These models, commonly trained on vast datasets, exhibit human-like text…

The following contribution introduces a concept that employs Large Language Models (LLMs) and a chatbot interface to enhance SPARQL query generation for ontologies, thereby facilitating intuitive access to formalized knowledge. Utilizing…

信息检索 · 计算机科学 2024-10-18 Jonathan Reif , Tom Jeleniewski , Milapji Singh Gill , Felix Gehlhoff , Alexander Fay

The rise of big data has amplified the need for efficient, user-friendly automated machine learning (AutoML) tools. However, the intricacy of understanding domain-specific data and defining prediction tasks necessitates human intervention…

计算与语言 · 计算机科学 2023-05-24 Md Mahadi Hassan , Alex Knipper , Shubhra Kanti Karmaker Santu

Large Language Models(LLMs)have become effective tools for natural language processing and have been used in many different fields. This essay offers a succinct summary of various LLM subcategories. The survey emphasizes recent developments…

计算与语言 · 计算机科学 2023-07-21 Saurabh Pahune , Manoj Chandrasekharan
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