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Cell type annotation is a key task in analyzing the heterogeneity of single-cell RNA sequencing data. Although recent foundation models automate this process, they typically annotate cells independently, without considering batch-level…

Computation and Language · Computer Science 2025-06-04 Yin Fang , Qiao Jin , Guangzhi Xiong , Bowen Jin , Xianrui Zhong , Siru Ouyang , Aidong Zhang , Jiawei Han , Zhiyong Lu

Context: Manual qualitative data analysis is time-intensive and can compromise validity and replicability, affecting analysis design, implementation, and reporting. Large Language Models (LLMs) enable human-bot collaboration in Software…

Software Engineering · Computer Science 2025-10-14 Zeeshan Rasheed , Muhammad Waseem , Aakash Ahmad , Kai-Kristian Kemell , Wang Xiaofeng , Anh Nguyen Duc , Pekka Abrahamsson

Explainable Reinforcement Learning (XRL) has emerged as a promising approach in improving the transparency of Reinforcement Learning (RL) agents. However, there remains a gap between complex RL policies and domain experts, due to the…

Artificial Intelligence · Computer Science 2025-09-09 Haechang Kim , Hao Chen , Can Li , Jong Min Lee

In the current digital era, the rapid spread of misinformation on online platforms presents significant challenges to societal well-being, public trust, and democratic processes, influencing critical decision making and public opinion. To…

Computation and Language · Computer Science 2024-05-06 Xinyi Li , Yongfeng Zhang , Edward C. Malthouse

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…

Quantitative Methods · Quantitative Biology 2025-05-14 Fan Zhang , Tianyu Liu , Zhihong Zhu , Hao Wu , Haixin Wang , Donghao Zhou , Yefeng Zheng , Kun Wang , Xian Wu , Pheng-Ann Heng

Knowledge tagging for questions is vital in modern intelligent educational applications, including learning progress diagnosis, practice question recommendations, and course content organization. Traditionally, these annotations have been…

Computation and Language · Computer Science 2024-12-20 Hang Li , Tianlong Xu , Ethan Chang , Qingsong Wen

Textual data annotation, the process of labeling or tagging text with relevant information, is typically costly, time-consuming, and labor-intensive. While large language models (LLMs) have demonstrated their potential as direct…

Computation and Language · Computer Science 2025-08-12 Yu-Min Tseng , Wei-Lin Chen , Chung-Chi Chen , Hsin-Hsi Chen

Penetration testing is essential to securing modern web infrastructures, yet traditional manual methods struggle to keep pace with their scale and complexity. Large Language Models (LLMs) offer new opportunities for automating these tasks,…

Cryptography and Security · Computer Science 2026-05-26 William Guanting Li , Alsharif Abuadbba , Kristen Moore , Dan Dongseong Kim

Choosing a Large Language Model (LLM) for a given task requires comparing many strong candidates, yet standard evaluation relies on costly annotations over fixed evaluation sets. To address this challenge, we develop SELECT-LLM, the first…

Computation and Language · Computer Science 2026-05-26 Yavuz Durmazkeser , Patrik Okanovic , Andreas Kirsch , Torsten Hoefler , Nezihe Merve Gürel

The era of intelligent agents is upon us, driven by revolutionary advancements in large language models. Large Language Model (LLM) agents, with goal-driven behaviors and dynamic adaptation capabilities, potentially represent a critical…

The construction of high-quality parallel corpora for translation research has increasingly evolved from simple sentence alignment to complex, multi-layered annotation tasks. This methodological shift presents significant challenges for…

Computation and Language · Computer Science 2026-02-12 Baorong Huang , Ali Asiri

Large Language Models (LLMs) and Multi-Agent LLMs (MALLMs) introduce non-determinism unlike traditional or machine learning software, requiring new approaches to verifying correctness beyond simple output comparisons or statistical accuracy…

Software Engineering · Computer Science 2025-10-22 Felix Dobslaw , Robert Feldt , Juyeon Yoon , Shin Yoo

Dermatological diagnosis requires integrating fine-grained visual perception with expert clinical knowledge. Although Multimodal Large Language Models (MLLMs) facilitate interactive medical image analysis, their application in dermatology…

Computer Vision and Pattern Recognition · Computer Science 2026-05-15 Yize Liu , Siyuan Yan , Ming Hu , Lie Ju , Xieji Li , Feilong Tang , Wei Feng , Zongyuan Ge

We introduce LLM SELECTOR, the first framework for active model selection of Large Language Models (LLMs). Unlike prior evaluation and benchmarking approaches that rely on fully annotated datasets, LLM SELECTOR efficiently identifies the…

Computation and Language · Computer Science 2025-10-13 Yavuz Durmazkeser , Patrik Okanovic , Andreas Kirsch , Torsten Hoefler , Nezihe Merve Gürel

As Large Language Models (LLMs) have become integral to both research and daily operations, rigorous evaluation is crucial. This assessment is important not only for individual tasks but also for understanding their societal impact and…

Software Engineering · Computer Science 2024-04-02 Zeeshan Rasheed , Muhammad Waseem , Kari Systä , Pekka Abrahamsson

Large language models (LLMs) have recently gained significant attention as a promising approach to accelerate scientific discovery. However, their application in open-ended scientific domains such as biology remains limited, primarily due…

Machine Learning · Computer Science 2026-05-21 Yunhui Jang , Lu Zhu , Jake Fawkes , Alisandra Kaye Denton , Dominique Beaini , Emmanuel Noutahi

In the context of text classification, the financial burden of annotation exercises for creating training data is a critical issue. Active learning techniques, particularly those rooted in uncertainty sampling, offer a cost-effective…

Computation and Language · Computer Science 2024-06-19 Hamidreza Rouzegar , Masoud Makrehchi

High-quality annotated data is a cornerstone of modern Natural Language Processing (NLP). While recent methods begin to leverage diverse annotation sources-including Large Language Models (LLMs), Small Language Models (SLMs), and human…

Artificial Intelligence · Computer Science 2025-09-18 Maosheng Qin , Renyu Zhu , Mingxuan Xia , Chenkai Chen , Zhen Zhu , Minmin Lin , Junbo Zhao , Lu Xu , Changjie Fan , Runze Wu , Haobo Wang

While Large Language Models (LLMs) have demonstrated potential in healthcare, they often struggle with the complex, non-linear reasoning required for accurate clinical diagnosis. Existing methods typically rely on static, linear mappings…

Computation and Language · Computer Science 2026-05-28 Zhuohan Ge , Haoyang Li , Yubo Wang , Nicole Hu , Chen Jason Zhang , Qing Li

Large Language Models (LLMs) have shown promising potential in the medical domain, assisting with tasks like clinical note generation and patient communication. However, current LLMs are limited to text-based communication, hindering their…

Computation and Language · Computer Science 2025-06-17 Yusheng Liao , Shuyang Jiang , Yanfeng Wang , Yu Wang