Survey and Improvement Strategies for Gene Prioritization with Large Language Models
Fuente:
arXiv
Saved in:
| Main Authors: | Neeley, Matthew, Qi, Guantong, Wang, Guanchu, Tang, Ruixiang, Mao, Dongxue, Liu, Chaozhong, Pasupuleti, Sasidhar, Yuan, Bo, Xia, Fan, Liu, Pengfei, Liu, Zhandong, Hu, Xia |
|---|---|
| Format: | Preprint |
| Published: |
2025
|
| Subjects: | |
| Online Access: | |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
Similar Items
LA-MARRVEL: A Knowledge-Grounded, Language-Aware LLM Framework for Clinically Robust Rare Disease Gene Prioritization
by: Lee, Jaeyeon, et al.
Published: (2025)
by: Lee, Jaeyeon, et al.
Published: (2025)
RareCollab: an LLM-powered framework for multimodal reasoning in Mendelian disease diagnosis
by: Qi, Guantong, et al.
Published: (2026)
by: Qi, Guantong, et al.
Published: (2026)
A Versatile AI Agent for Rare Disease Diagnosis and Risk Gene Prioritization
by: Liu, Tianyu, et al.
Published: (2026)
by: Liu, Tianyu, et al.
Published: (2026)
GeneZip: Region-Aware Compression for Long Context DNA Modeling
by: Zhao, Jianan, et al.
Published: (2026)
by: Zhao, Jianan, et al.
Published: (2026)
Biological Sequence Clustering: A Survey
by: Zhang, Simeng, et al.
Published: (2026)
by: Zhang, Simeng, et al.
Published: (2026)
Single‐Cell Transcriptomic Atlas Reveals Metabolic Reprogramming and Transdifferentiation Trajectories in Tubular Epithelial Cells During Chronic Kidney Disease Progression
by: Xinhui Mao, et al.
Published: (2026)
by: Xinhui Mao, et al.
Published: (2026)
Integrative Analysis of Telomere‐Related Genes Reveals Prognostic Signatures in Laryngeal Cancer
by: Yesong Cheng, et al.
Published: (2026)
by: Yesong Cheng, et al.
Published: (2026)
A Neurotrophic Factor–Related Gene Signature Predicts Prognosis and Immunotherapy Response in Colorectal Cancer
by: Xu-Yang Zuo, et al.
Published: (2026)
by: Xu-Yang Zuo, et al.
Published: (2026)
ConSol: Sequential Probability Ratio Testing to Find Consistent LLM Reasoning Paths Efficiently
by: Lee, Jaeyeon, et al.
Published: (2025)
by: Lee, Jaeyeon, et al.
Published: (2025)
Deubiquitinase Genes as Prognostic Biomarkers in Osteosarcoma: Insights From Single‐Cell Sequencing and Machine Learning–Based Prognostic Modeling
by: Meng Zhang, et al.
Published: (2025)
by: Meng Zhang, et al.
Published: (2025)
Identification of Key Genes in Acute Liver Failure via Analysis of Programmed Cell Death Patterns
by: Guangli Liu, et al.
Published: (2026)
by: Guangli Liu, et al.
Published: (2026)
PathGene: Benchmarking Driver Gene Mutations and Exon Prediction Using Multicenter Lung Cancer Histopathology Image Dataset
by: Pan, Liangrui, et al.
Published: (2025)
by: Pan, Liangrui, et al.
Published: (2025)
Reliable Inference of Phylogenomic Relationship via Assembly-Based Strategy Accommodating Raw Reads and Proteins.
by: Li, Yunlong, et al.
Published: (2026)
by: Li, Yunlong, et al.
Published: (2026)
An Integrative Analysis Identified Six Genes That Regulate the Development of Atherosclerosis Through Autophagy
by: Ao Yin, et al.
Published: (2025)
by: Ao Yin, et al.
Published: (2025)
A 24‐nt miR9560 modulates the transporter gene BrpHMA2 expression in Brassica parachinensis
by: Yongsheng Bai, et al.
Published: (2025)
by: Yongsheng Bai, et al.
Published: (2025)
GRIT: Graph-Regularized Logit Refinement for Zero-shot Cell Type Annotation
by: Hu, Tianxiang, et al.
Published: (2025)
by: Hu, Tianxiang, et al.
Published: (2025)
A Mutation in the ANK2 Gene Causing ASD and a Review of the Literature
by: Lu Zhao, et al.
Published: (2025)
by: Lu Zhao, et al.
Published: (2025)
Advancing Risk Gene Discovery Across the Allele Frequency Spectrum
by: Caballero, Madison, et al.
Published: (2025)
by: Caballero, Madison, et al.
Published: (2025)
Five-Gene Expression Formula Accurately Detects Hepatocellular Carcinoma Tumors
by: Ogholbake, Aram Ansary, et al.
Published: (2025)
by: Ogholbake, Aram Ansary, et al.
Published: (2025)
Aldehyde Dehydrogenase 2 Gene Polymorphism and Alcohol Consumption Are Associated With Nephrolithiasis in a Chinese Population
by: Tao Liu, et al.
Published: (2025)
by: Tao Liu, et al.
Published: (2025)
Complete genome sequence of the marine mangrove fungus Sarcopodium sp.QM3-1 confirmed its high potential for antimicrobial activity.
by: Zhang, Wenzhou, et al.
Published: (2025)
by: Zhang, Wenzhou, et al.
Published: (2025)
A Graphical Method for Identifying Gene Clusters from RNA Sequencing Data
by: Patock, Jake R., et al.
Published: (2025)
by: Patock, Jake R., et al.
Published: (2025)
Functional analysis of PagERF021 gene in salt stress tolerance in Populus alba × P. glandulosa
by: Gaofeng Fan, et al.
Published: (2024)
by: Gaofeng Fan, et al.
Published: (2024)
Interpretable machine learning framework for designing high ionic conductivity in low‐temperature lithium‐ion battery electrolytes
by: Huiyang Fan, et al.
Published: (2025)
by: Huiyang Fan, et al.
Published: (2025)
ERAP1 Gene Variants and Haplotypes Associated With Psoriasis Vulgaris of Han Chinese in Inner Mongolia
by: Xin Li, et al.
Published: (2024)
by: Xin Li, et al.
Published: (2024)
Distribution of Methylene Tetrahydrofolate Reductase Gene Polymorphisms in Women of Childbearing Age in Tai’an
by: Bo Zhou, et al.
Published: (2025)
by: Bo Zhou, et al.
Published: (2025)
Hierarchical Classification for Predicting Metastasis Using Elastic-Net Regularization on Gene Expression Data
by: Agyare, Benjamin Osafo, et al.
Published: (2024)
by: Agyare, Benjamin Osafo, et al.
Published: (2024)
Gene finding revisited: improved robustness through structured decoding from learned embeddings
by: Marin, Frederikke I., et al.
Published: (2025)
by: Marin, Frederikke I., et al.
Published: (2025)
G2DR: A Genotype-First Framework for Genetics-Informed Target Prioritization and Drug Repurposing
by: Muneeb, Muhammad, et al.
Published: (2026)
by: Muneeb, Muhammad, et al.
Published: (2026)
Compound Heterozygous Loss‐of‐Function Variants in CCM2L in a Fetus With Tetralogy of Fallot
by: Dandan Ling, et al.
Published: (2025)
by: Dandan Ling, et al.
Published: (2025)
Genomic Analysis of Date Palm Fruit Size Traits and Identification of Candidate Genes through GWAS
by: Younuskunju, Shameem, et al.
Published: (2025)
by: Younuskunju, Shameem, et al.
Published: (2025)
Robust Clustering Analysis of Genes Related to Age-related Macular Degeneration using RNA-Seq
by: Gutierrez, Brayan, et al.
Published: (2026)
by: Gutierrez, Brayan, et al.
Published: (2026)
PhenotypeToGeneDownloaderR: automated multi-source retrieval and validation of phenotype-associated genes
by: Muneeb, Muhammad, et al.
Published: (2026)
by: Muneeb, Muhammad, et al.
Published: (2026)
Establishment of a m 6 A‐Related Molecular Pattern in the Prognosis and Immune Infiltration of Osteosarcoma Using Machine Learning and Experiments
by: Na He, et al.
Published: (2026)
by: Na He, et al.
Published: (2026)
Rethinking eukaryogenesis: genomic signatures suggest an aerobic host.
by: Du, Huan, et al.
Published: (2026)
by: Du, Huan, et al.
Published: (2026)
Chromosome-level genome assembly of Chirolophis japonicus Herzenstein, 1890 (Stichaeidae, Perciformes).
by: Liu, Kaiqiang, et al.
Published: (2026)
by: Liu, Kaiqiang, et al.
Published: (2026)
Overexpression of FERM Domain Containing Kindlin 2 (FERMT2) in Fibroblasts Correlates with EMT and Immunosuppression in Gastric Cancer
by: Sheng-yan Yin, et al.
Published: (2024)
by: Sheng-yan Yin, et al.
Published: (2024)
PyamilySeq: A Python Tool for Interpretable Gene (Re)Clustering and Pangenomic Inference Across Species and Genera
by: Dimonaco, Nicholas J.
Published: (2024)
by: Dimonaco, Nicholas J.
Published: (2024)
Beyond Independent Genes: Learning Module-Inductive Representations for Gene Perturbation Prediction
by: Ruan, Jiafa, et al.
Published: (2026)
by: Ruan, Jiafa, et al.
Published: (2026)
GenoTEX: An LLM Agent Benchmark for Automated Gene Expression Data Analysis
by: Liu, Haoyang, et al.
Published: (2024)
by: Liu, Haoyang, et al.
Published: (2024)
Similar Items
-
LA-MARRVEL: A Knowledge-Grounded, Language-Aware LLM Framework for Clinically Robust Rare Disease Gene Prioritization
by: Lee, Jaeyeon, et al.
Published: (2025) -
RareCollab: an LLM-powered framework for multimodal reasoning in Mendelian disease diagnosis
by: Qi, Guantong, et al.
Published: (2026) -
A Versatile AI Agent for Rare Disease Diagnosis and Risk Gene Prioritization
by: Liu, Tianyu, et al.
Published: (2026) -
GeneZip: Region-Aware Compression for Long Context DNA Modeling
by: Zhao, Jianan, et al.
Published: (2026) -
Biological Sequence Clustering: A Survey
by: Zhang, Simeng, et al.
Published: (2026)