Related papers: Gene-R1: Reasoning with Data-Augmented Lightweight…

Large language models (LLMs) have shown growing promise in biomedical research, particularly for knowledge-driven interpretation tasks. However, their ability to reliably reason from gene-level knowledge to functional understanding, a core…

Comprehending genomic information is essential for biomedical research, yet extracting data from complex distributed databases remains challenging. Large language models (LLMs) offer potential for genomic Question Answering (QA) but face…

Large Language Models (LLMs) excel at reasoning and generation but are inherently limited by static pretraining data, resulting in factual inaccuracies and weak adaptability to new information. Retrieval-Augmented Generation (RAG) addresses…

Tabular data serves as the backbone of modern data analysis and scientific research. While Large Language Models (LLMs) fine-tuned via Supervised Fine-Tuning (SFT) have significantly improved natural language interaction with such…

Large reasoning models (LRMs) like OpenAI-o1 have demonstrated impressive long stepwise reasoning capabilities through large-scale reinforcement learning. However, their extended reasoning processes often suffer from knowledge…

Large language models (LLMs)-empowered web agents enables automating complex, real-time web navigation tasks in enterprise environments. However, existing web agents relying on supervised fine-tuning (SFT) often struggle with generalization…

Large language models (LLMs) have recently shown strong progress on scientific reasoning, yet two major bottlenecks remain. First, explicit retrieval fragments reasoning, imposing a hidden "tool tax" of extra tokens and steps. Second,…

The growing complexity of log data in modern software systems has prompted the use of Large Language Models (LLMs) for automated log analysis. Current approaches typically rely on direct supervised fine-tuning (SFT) on log-label pairs.…

We investigate how to teach large language models (LLMs) to perform scientific reasoning by leveraging expert discussions as a learning signal. Focusing on the genomics domain, we develop an automated pipeline to extract trainable data and…

Gradient saliency from deep sequence models surfaces candidate biomarkers efficiently, but the resulting gene lists can be contaminated by tissue-composition confounders that degrade downstream classifiers. We study whether LLM…

Large language models (LLM) hold significant potential for applications in biomedicine, but they struggle with hallucinations and outdated knowledge. While retrieval-augmented generation (RAG) is generally employed to address these issues,…

Large Language Models (LLMs), despite their remarkable capabilities, are prone to generating hallucinated or outdated content due to their static internal knowledge. While Retrieval-Augmented Generation (RAG) integrated with Reinforcement…

Large Language Models (LLM) with reasoning capabilities offer a promising path for improving candidate evaluation in planning frameworks, but their relative performance against traditional non-reasoning models remains largely underexplored.…

Large Language Models (LLMs) such as GPT-4 and Llama3 have significantly impacted various fields by enabling high-quality synthetic data generation and reducing dependence on expensive human-generated datasets. Despite this, challenges…

Ensuring reliable data-driven decisions is crucial in domains where analytical accuracy directly impacts safety, compliance, or operational outcomes. Decision support in such domains relies on large tabular datasets, where manual analysis…

The Gene-pool Optimal Mixing Evolutionary Algorithm (GOMEA) is a model-based EA framework that has been shown to perform well in several domains, including Genetic Programming (GP). Differently from traditional EAs where variation acts…

Language has long been conceived as an essential tool for human reasoning. The breakthrough of Large Language Models (LLMs) has sparked significant research interest in leveraging these models to tackle complex reasoning tasks. Researchers…

The proliferation of omics datasets in public repositories has created unprecedented opportunities for biomedical research but has also posed significant challenges for their integration, particularly due to missing genes and…

Large Language Models (LLMs) are increasingly adopted as evaluators, offering a scalable alternative to human annotation. However, existing supervised fine-tuning (SFT) approaches often fall short in domains that demand complex reasoning.…

Large Language Models (LLMs) have enabled a wide range of applications through their powerful capabilities in language understanding and generation. However, as LLMs are trained on static corpora, they face difficulties in addressing…