Cover Image

VQDNA: Unleashing the Power of Vector Quantization for Multi-Species Genomic Sequence Modeling

Fuente: arXiv

Saved in:

Bibliographic Details
Main Authors:	Li, Siyuan, Wang, Zedong, Liu, Zicheng, Wu, Di, Tan, Cheng, Zheng, Jiangbin, Huang, Yufei, Li, Stan Z.
Format:	Preprint
Published:	2024
Subjects:	Genomics Artificial Intelligence
Online Access:	Acceder al recurso
Tags:	Add Tag No Tags, Be the first to tag this record!

Similar Items

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

Life-Code: Central Dogma Modeling with Multi-Omics Sequence Unification
by: Liu, Zicheng, et al.
Published: (2025)

MergeDNA: Context-aware Genome Modeling with Dynamic Tokenization through Token Merging
by: Li, Siyuan, et al.
Published: (2025)

TrinityDNA: A Bio-Inspired Foundational Model for Efficient Long-Sequence DNA Modeling
by: Yang, Qirong, et al.
Published: (2025)

Absorb & Escape: Overcoming Single Model Limitations in Generating Genomic Sequences
by: Li, Zehui, et al.
Published: (2024)

Artificial Intelligence for Central Dogma-Centric Multi-Omics: Challenges and Breakthroughs
by: Xin, Lei, et al.
Published: (2024)

Enhancing Downstream Analysis in Genome Sequencing: Species Classification While Basecalling
by: Kodra, Riselda, et al.
Published: (2025)

DNAMotifTokenizer: Towards Biologically Informed Tokenization of Genomic Sequences
by: Zhou, Xiaoxiao, et al.
Published: (2025)

LongVQ: Long Sequence Modeling with Vector Quantization on Structured Memory
by: Liu, Zicheng, et al.
Published: (2024)

Cross-Species Antimicrobial Resistance Prediction from Genomic Foundation Models
by: Tai, Huilin
Published: (2026)

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

Omni-DNA: A Unified Genomic Foundation Model for Cross-Modal and Multi-Task Learning
by: Li, Zehui, et al.
Published: (2025)

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

Topological Sequence Analysis of Genomes: Category theory Approaches
by: Liu, Jian, et al.
Published: (2025)

HAD: Hybrid Architecture Distillation Outperforms Teacher in Genomic Sequence Modeling
by: Yang, Hexiong, et al.
Published: (2025)

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

FGBERT: Function-Driven Pre-trained Gene Language Model for Metagenomics
by: Duan, ChenRui, et al.
Published: (2024)

The Mechanistic Invariance Test: Genomic Language Models Fail to Learn Positional Regulatory Logic
by: Cheng, Bryan, et al.
Published: (2026)

The High‐Quality Genome Sequencing and Analysis of Red Raspberry (Rubus idaeus L.)
by: Haopeng Zhang, et al.
Published: (2024)

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

Genome‐wide Identification and expression analysis of TOR signaling pathway components in apple in response to low nitrogen
by: Dehai Liu, et al.
Published: (2026)

A Chromosomal-Level Genome of Dermatophagoides farinae, a Common Allergenic Mite Species
by: Rongxuan Hu, et al.
Published: (2024)

DiscDiff: Latent Diffusion Model for DNA Sequence Generation
by: Li, Zehui, et al.
Published: (2024)

Genome‐wide association studies on resistance to powdery mildew in cultivated emmer wheat
by: Dhondup Lhamo, et al.
Published: (2024)

Contrastive Deep Learning for Variant Detection in Wastewater Genomic Sequencing
by: Chinda, Adele, et al.
Published: (2025)

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

DeepPlantCRE: A Transformer-CNN Hybrid Framework for Plant Gene Expression Modeling and Cross-Species Generalization
by: Wu, Yingjun, et al.
Published: (2025)

An AI-powered Knowledge Hub for Potato Functional Genomics
by: Yuxin, Jia, et al.
Published: (2025)

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

Range-Limited Heaps' Law for Functional DNA Words in the Human Genome
by: Li, Wentian, et al.
Published: (2024)

SPACE: Your Genomic Profile Predictor is a Powerful DNA Foundation Model
by: Yang, Zhao, et al.
Published: (2025)

Integrative Pan-Cancer Analysis of RNMT: a Potential Prognostic and Immunological Biomarker
by: Huang, Shuqiang, et al.
Published: (2022)

Whole-Genome Sequence of Potamopyrgus antipodarum-A Model System for the Maintenance of Sexual Reproduction-Reveals a Recent Whole-Genome Duplication.
by: Jalinsky, Joseph, et al.
Published: (2025)

A Phylogenetic Approach to Genomic Language Modeling
by: Albors, Carlos, et al.
Published: (2025)

DuAL-Net: A Hybrid Framework for Alzheimer's Disease Prediction from Whole-Genome Sequencing via Local SNP Windows and Global Annotations
by: Lee, Eun Hye, et al.
Published: (2025)

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)

Improving Genomic Models via Task-Specific Self-Pretraining
by: Mupparapu, Sohan, et al.
Published: (2025)

Poisoning the Genome: Targeted Backdoor Attacks on DNA Foundation Models
by: Koilakos, Charalampos, et al.
Published: (2026)

Genome-Factory: A Library for Tuning, Deploying, and Interpreting Genomic Foundation Models
by: Wu, Weimin, et al.
Published: (2025)

Genomic selection: Essence, applications, and prospects
by: Diana M. Escamilla, et al.
Published: (2025)