Biodiscoveryagent: An ai agent for designing genetic perturbation experiments
Agents based on large language models have shown great potential in accelerating
scientific discovery by leveraging their rich background knowledge and reasoning …
scientific discovery by leveraging their rich background knowledge and reasoning …
[HTML][HTML] Large Language Models, scientific knowledge and factuality: A framework to streamline human expert evaluation
Objective: The paper introduces a framework for the evaluation of the encoding of factual
scientific knowledge, designed to streamline the manual evaluation process typically …
scientific knowledge, designed to streamline the manual evaluation process typically …
Pathway-based analyses of gene expression profiles at low doses of ionizing radiation
Radiation exposure poses a significant threat to human health. Emerging research indicates
that even low-dose radiation once believed to be safe, may have harmful effects. This …
that even low-dose radiation once believed to be safe, may have harmful effects. This …
[HTML][HTML] A Comprehensive Evaluation of Large Language Models in Mining Gene Interactions and Pathway Knowledge
Background: Understanding complex biological pathways, including gene-gene interactions
and gene regulatory networks, is critical for exploring disease mechanisms and drug …
and gene regulatory networks, is critical for exploring disease mechanisms and drug …
Density estimation via measure transport: Outlook for applications in the biological sciences
V López‐Marrero, PR Johnstone… - Statistical Analysis and …, 2024 - Wiley Online Library
One among several advantages of measure transport methods is that they allow or a unified
framework for processing and analysis of data distributed according to a wide class of …
framework for processing and analysis of data distributed according to a wide class of …
GeneRAG: Enhancing Large Language Models with Gene-Related Task by Retrieval-Augmented Generation
Abstract Large Language Models (LLMs) like GPT-4 have revolutionized natural language
processing and are used in gene analysis, but their gene knowledge is incomplete. Fine …
processing and are used in gene analysis, but their gene knowledge is incomplete. Fine …
Large Language Models for Pathway Curation: A Preliminary Investigation
N Karkera, N Karkera, M Kumar, S Ghosh… - bioRxiv, 2024 - biorxiv.org
The pathway curation task involves analyzing scientific literature to identify and represent
cellular processes as pathways. This process, often time-consuming and labor-intensive …
cellular processes as pathways. This process, often time-consuming and labor-intensive …
Benchmarking and Enhancing Large Language Models for Biological Pathway Reasoning
Large language models (LLMs) have demonstrated remarkable performance across various
domains of biology, but their ability to reason about biological pathways remains …
domains of biology, but their ability to reason about biological pathways remains …