Cover Image

DNAMotifTokenizer: Towards Biologically Informed Tokenization of Genomic Sequences

Fuente: arXiv

Saved in:

Bibliographic Details
Main Authors:	Zhou, Xiaoxiao, Wang, Zihan, Shang, Jingbo, Li, Yang E.
Format:	Preprint
Published:	2025
Subjects:	Genomics
Online Access:	Acceder al recurso
Tags:	Add Tag No Tags, Be the first to tag this record!

Similar Items

EvoLen: Evolution-Guided Tokenization for DNA Language Model
by: Huang, Nan, et al.
Published: (2026)

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

Model Decides How to Tokenize: Adaptive DNA Sequence Tokenization with MxDNA
by: Qiao, Lifeng, et al.
Published: (2024)

Genomic Next-Token Predictors are In-Context Learners
by: Breslow, Nathan, et al.
Published: (2025)

Biological Sequence Clustering: A Survey
by: Zhang, Simeng, et al.
Published: (2026)

Toward Interpretable and Generalizable AI in Regulatory Genomics
by: Nagai, Masayuki, et al.
Published: (2026)

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

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

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

VQDNA: Unleashing the Power of Vector Quantization for Multi-Species Genomic Sequence Modeling
by: Li, Siyuan, et al.
Published: (2024)

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

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

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

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

SeekRBP: Leveraging Sequence-Structure Integration with Reinforcement Learning for Receptor-Binding Protein Identification
by: Luo, Xiling, et al.
Published: (2026)

Robust Machine Learning for Regulatory Sequence Modeling under Biological and Technical Distribution Shifts
by: Yang, Yiyao
Published: (2026)

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

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

Single Cells Are Spatial Tokens: Transformers for Spatial Transcriptomic Data Imputation
by: Wen, Hongzhi, et al.
Published: (2023)

SequenceLab: A Comprehensive Benchmark of Computational Methods for Comparing Genomic Sequences
by: Rumpf, Maximilian-David, et al.
Published: (2023)

Enhancing Downstream Analysis in Genome Sequencing: Species Classification While Basecalling
by: Kodra, Riselda, 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)

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

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

Pathway Tools version 28.0: Integrated Software for Pathway/Genome Informatics and Systems Biology
by: Karp, Peter D., et al.
Published: (2015)

Lyra: An Efficient and Expressive Subquadratic Architecture for Modeling Biological Sequences
by: Ramesh, Krithik, et al.
Published: (2025)

Controllable Sequence Editing for Biological and Clinical Trajectories
by: Li, Michelle M., 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)

Complete Genome Sequence Analysis of Bacillus subtilis MC4-2 Strain That against Tobacco Black Shank Disease
by: Chunlan Shi, et al.
Published: (2024)

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)

deepFEPS: Deep Learning-Oriented Feature Extraction for Biological Sequences
by: Ismail, Hamid, et al.
Published: (2025)

CiMBA: Accelerating Genome Sequencing through On-Device Basecalling via Compute-in-Memory
by: Simon, William Andrew, et al.
Published: (2025)

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

bDNA Medium: Secure Conversion of Raw Genomic Sequencing Data to Verifiable Cryptographic Objects
by: Lowy, Shoel
Published: (2026)

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

Comparative Genomics of Transisthmian Damselfishes (Abudefduf saxatilis and A. troschelii).
by: Tracy, Claire B, et al.
Published: (2026)

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

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

Genomic signatures of speciation and adaptation in the ctenophore Mnemiopsis.
by: Ketchum, Remi N, et al.
Published: (2026)

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