Cover Image

PhageBench: Can LLMs Understand Raw Bacteriophage Genomes?

Fuente: arXiv

Saved in:

Bibliographic Details
Main Authors:	Hou, Yusen, Long, Weicai, Hu, Haitao, Su, Houcheng, Feng, Junning, Zhang, Yanlin
Format:	Preprint
Published:	2026
Subjects:	Computation and Language Genomics
Online Access:	Acceder al recurso
Tags:	Add Tag No Tags, Be the first to tag this record!

Similar Items

GenomeQA: Benchmarking General Large Language Models for Genome Sequence Understanding
by: Long, Weicai, et al.
Published: (2026)

OmniGenBench: A Modular Platform for Reproducible Genomic Foundation Models Benchmarking
by: Yang, Heng, et al.
Published: (2025)

OmniGenBench: Automating Large-scale in-silico Benchmarking for Genomic Foundation Models
by: Yang, Heng, et al.
Published: (2024)

GENERator: A Long-Context Generative Genomic Foundation Model
by: Wu, Wei, et al.
Published: (2025)

Entropy, Disagreement, and the Limits of Foundation Models in Genomics
by: Rochkoulets, Maxime, et al.
Published: (2026)

PathoLM: Identifying pathogenicity from the DNA sequence through the Genome Foundation Model
by: Dip, Sajib Acharjee, et al.
Published: (2024)

PhageMind: Generalized Strain-level Phage Host Range Prediction via Meta-learning
by: Shen, Yang, et al.
Published: (2026)

LangCell: Language-Cell Pre-training for Cell Identity Understanding
by: Zhao, Suyuan, et al.
Published: (2024)

Single-Cell Omics Arena: A Benchmark Study for Large Language Models on Cell Type Annotation Using Single-Cell Data
by: Liu, Junhao, et al.
Published: (2024)

Leveraging Natural Language Processing to Unravel the Mystery of Life: A Review of NLP Approaches in Genomics, Transcriptomics, and Proteomics
by: Rannon, Ella, et al.
Published: (2025)

Mind the Gap No More: Achieving Zero-Gap Multimodal Integration via One Tokenizer
by: Li, Yanan, et al.
Published: (2026)

GeneSUM: Large Language Model-based Gene Summary Extraction
by: Chen, Zhijian, et al.
Published: (2024)

Infection and Genomic Properties of Single- and Double-Stranded DNA Phages.
by: Howard-Varona, Cristina, et al.
Published: (2025)

DNACHUNKER: Learnable Tokenization for DNA Language Models
by: Kim, Taewon, et al.
Published: (2026)

Large Language Models in Plant Biology
by: Lam, Hilbert Yuen In, et al.
Published: (2024)

Bridging Sequence-Structure Alignment in RNA Foundation Models
by: Yang, Heng, et al.
Published: (2024)

Large Language Models in Bioinformatics: A Survey
by: Wang, Zhenyu, et al.
Published: (2025)

scReader: Prompting Large Language Models to Interpret scRNA-seq Data
by: Li, Cong, et al.
Published: (2024)

Gene42: Long-Range Genomic Foundation Model With Dense Attention
by: Vishniakov, Kirill, et al.
Published: (2025)

Can linguists better understand DNA?
by: Liang, Wang
Published: (2024)

The Genomics Revolution in Nonmodel Species: Predictions vs. Reality for Salmonids.
by: May, Samuel A, et al.
Published: (2025)

Knowledge-Driven Feature Selection and Engineering for Genotype Data with Large Language Models
by: Lee, Joseph, et al.
Published: (2024)

GeneMamba: An Efficient and Effective Foundation Model on Single Cell Data
by: Qi, Cong, et al.
Published: (2025)

DNABERT-2: Efficient Foundation Model and Benchmark For Multi-Species Genome
by: Zhou, Zhihan, et al.
Published: (2023)

Can Large Language Models Replace Data Scientists in Biomedical Research?
by: Wang, Zifeng, et al.
Published: (2024)

OGU: A Toolbox for Better Utilising Organelle Genomic Data.
by: Wu, Ping, et al.
Published: (2025)

RawBench: A Comprehensive Benchmarking Framework for Raw Nanopore Signal Analysis Techniques
by: Eris, Furkan, et al.
Published: (2025)

MBGD: Microbial Genome Database for Comparative Analysis Featuring Enhanced Functionality to Characterize Gene and Genome Functions Through Large-scale Orthology Analysis.
by: Uchiyama, Ikuo, 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)

A Zipf-preserving, long-range correlated surrogate for written language and other symbolic sequences
by: Montemurro, Marcelo A., et al.
Published: (2026)

GeneGPT: Augmenting Large Language Models with Domain Tools for Improved Access to Biomedical Information
by: Jin, Qiao, et al.
Published: (2023)

Generative Language Models on Nucleotide Sequences of Human Genes
by: Ihtiyar, Musa Nuri, et al.
Published: (2023)

The Mitochondrial Genome of Cathaya argyrophylla Reaches 18.99 Mb: Analysis of Super-Large Mitochondrial Genomes in Pinaceae
by: Huang, Kerui, et al.
Published: (2024)

A Chromosome-level Assembly and Functional Genomic Resources for the Model Annelid Capitella teleta.
by: Davies, Billie E, et al.
Published: (2026)

Genomic Insight into Isolates from Fresh Raw Mussels and Ready-to-Eat Stuffed Mussels.
by: Yibar, Artun, et al.
Published: (2025)

The Cathaya argyrophylla Genome Reveals the Evolutionary Trade-offs of a Living Fossil
by: Wang, Yun, et al.
Published: (2026)

What Can Genome Sequence Data Reveal About Population Viability?
by: Kardos, Marty, et al.
Published: (2025)

GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models
by: Liu, Zicheng, et al.
Published: (2024)

MARS: Processing-In-Memory Acceleration of Raw Signal Genome Analysis Inside the Storage Subsystem
by: Soysal, Melina, et al.
Published: (2025)

Evaluation of large language models for discovery of gene set function
by: Hu, Mengzhou, et al.
Published: (2023)