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Large Language Models (LLMs) are revolutionizing bioinformatics, enabling advanced analysis of DNA, RNA, proteins, and single-cell data. This survey provides a systematic review of recent advancements, focusing on genomic sequence modeling,…

Computation and Language · Computer Science 2026-03-03 Zhenyu Wang , Zikang Wang , Jiyue Jiang , Pengan Chen , Xiangyu Shi , Yu Li

Data selection for fine-tuning large language models (LLMs) aims to choose a high-quality subset from existing datasets, allowing the trained model to outperform baselines trained on the full dataset. However, the expanding body of research…

Computation and Language · Computer Science 2025-02-25 Ziche Liu , Rui Ke , Yajiao Liu , Feng Jiang , Haizhou Li

We consider small-data, large-scale decision problems in which a firm must make many operational decisions simultaneously (e.g., across a large product portfolio) while observing only a few, potentially noisy, data points per instance.…

Machine Learning · Computer Science 2026-02-04 Zishi Zhang , Jinhui Han , Ming Hu , Yijie Peng

Large Language Model (LLM)-based systems present new opportunities for autonomous health monitoring in sensor-rich industrial environments. This study explores the potential of LLMs to detect and classify faults directly from sensor data,…

Artificial Intelligence · Computer Science 2025-09-30 Xian Yeow Lee , Lasitha Vidyaratne , Ahmed Farahat , Chetan Gupta

Linear mixed models (LMMs) are a powerful and established tool for studying genotype-phenotype relationships. A limiting assumption of LMMs is that the residuals are Gaussian distributed, a requirement that rarely holds in practice.…

Genomics · Quantitative Biology 2014-08-10 Nicolo Fusi , Christoph Lippert , Neil D. Lawrence , Oliver Stegle

How can we identify causal genetic mechanisms that govern bacterial traits? Initial efforts entrusting machine learning models to handle the task of predicting phenotype from genotype return high accuracy scores. However, attempts to…

Genomics · Quantitative Biology 2025-02-12 Tamsin James , Ben Williamson , Peter Tino , Nicole Wheeler

Large Language Models (LLMs) have revolutionized natural language processing through their state of art reasoning capabilities. This paper explores the convergence of LLM reasoning techniques and feature generation for machine learning…

Computation and Language · Computer Science 2025-03-21 Dharani Chandra

Tabular machine learning problems often require time-consuming and labor-intensive feature engineering. Recent efforts have focused on using large language models (LLMs) to capitalize on their potential domain knowledge. At the same time,…

Machine Learning · Computer Science 2025-07-16 Jaris Küken , Lennart Purucker , Frank Hutter

Large language models (LLMs) are transforming electronic design automation (EDA) by enhancing design stages such as schematic design, simulation, netlist synthesis, and place-and-route. Existing methods primarily focus these optimisations…

Tabular data is foundational to predictive modeling in various crucial industries, including healthcare, finance, retail, sustainability, etc. Despite the progress made in specialized models, there is an increasing demand for universal…

Machine Learning · Computer Science 2024-07-12 Xumeng Wen , Han Zhang , Shun Zheng , Wei Xu , Jiang Bian

Life science is entering a new era of petabyte-level sequencing data. Converting such big data to biological insights represents a huge challenge for computational analysis. To this end, we developed DeepMetabolism, a biology-guided deep…

Genomics · Quantitative Biology 2017-05-10 Weihua Guo , You Xu , Xueyang Feng

Large Multimodal Models (LMMs), or Vision-Language Models (VLMs), have shown impressive capabilities in a wide range of visual tasks. However, they often struggle with fine-grained visual reasoning, failing to identify domain-specific…

Computer Vision and Pattern Recognition · Computer Science 2025-02-26 Yucheng Shi , Quanzheng Li , Jin Sun , Xiang Li , Ninghao Liu

Foundation models, such as Large Language Models (LLMs) or Large Vision Models (LVMs), have emerged as one of the most powerful tools in the respective fields. However, unlike text and image data, graph data do not have a definitive…

Machine Learning · Computer Science 2025-04-28 Lecheng Kong , Jiarui Feng , Hao Liu , Chengsong Huang , Jiaxin Huang , Yixin Chen , Muhan Zhang

Recent advances in natural language processing enable more intelligent ways to support knowledge sharing in factories. In manufacturing, operating production lines has become increasingly knowledge-intensive, putting strain on a factory's…

Human-Computer Interaction · Computer Science 2024-02-27 Samuel Kernan Freire , Chaofan Wang , Mina Foosherian , Stefan Wellsandt , Santiago Ruiz-Arenas , Evangelos Niforatos

Droplet-based microfluidic devices have substantial promise as cost-effective alternatives to current assessment tools in biological research. Moreover, machine learning models that leverage tabular data, including input design parameters…

Artificial Intelligence · Computer Science 2024-11-12 Dinh-Nguyen Nguyen , Raymond Kai-Yu Tong , Ngoc-Duy Dinh

Large Language Models (LLMs) have proven efficient in giving definition-type answers to user input queries. While for humans giving various types of answers, such as examples and paraphrases, is an easy task, LLMs struggle to provide…

Computation and Language · Computer Science 2025-12-01 Ioana Buhnila , Aman Sinha , Mathieu Constant

Feature Transformation (FT) is a core data-centric AI task that improves feature space quality to advance downstream predictive performance. However, discovering effective transformations remains challenging due to the large space of…

Computation and Language · Computer Science 2026-03-12 Xinyuan Wang , Kunpeng Liu , Arun Vignesh Malarkkan , Yanjie Fu

Large language models (LLMs) have significantly benefited from training on diverse, high-quality task-specific data, leading to impressive performance across a range of downstream applications. Current methods often rely on human-annotated…

Computation and Language · Computer Science 2024-10-23 Qintong Li , Jiahui Gao , Sheng Wang , Renjie Pi , Xueliang Zhao , Chuan Wu , Xin Jiang , Zhenguo Li , Lingpeng Kong

Feature selection (FS) remains essential for building accurate and interpretable detection models, particularly in high-dimensional malware datasets. Conventional FS methods such as Extra Trees, Variance Threshold, Tree-based models,…

Machine Learning · Computer Science 2026-02-11 Naveen Gill , Ajvad Haneef K , Madhu Kumar S D

Feature selection is a crucial step in large-scale industrial machine learning systems, directly affecting model accuracy, efficiency, and maintainability. Traditional feature selection methods rely on labeled data and statistical…

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