mlsanityData to 14 Oct 2026

Can linguists better understand DNA?

arXiv 2412.07678 ↗First posted 10 Dec 2024cs.CL q-bio.GNcited by 0

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Abstract (arXiv)

Multilingual transfer ability, which reflects how well models fine-tuned on one source language can be applied to other languages, has been well studied in multilingual pre-trained models. However, the existence of such capability transfer between natural language and gene sequences/languages remains under explored.This study addresses this gap by drawing inspiration from the sentence-pair classification task used for evaluating sentence similarity in natural language. We constructed two analogous tasks: DNA-pair classification(DNA sequence similarity) and DNA-protein-pair classification(gene coding determination). These tasks were designed to validate the transferability of capabilities from natural language to gene sequences. Even a small-scale pre-trained model like GPT-2-small, which was pre-trained on English, achieved an accuracy of 78% on the DNA-pair classification task after being fine-tuned on English sentence-pair classification data(XTREME PAWS-X). While training a BERT model on multilingual text, the precision reached 89%. On the more complex DNA-protein-pair classification task, however, the model's output was barely distinguishable from random output.Experimental validation has confirmed that the transfer of capabilities from natural language to biological language is unequivocally present. Building on this foundation, we have also investigated the impact of model parameter scale and pre-training on this capability transfer. We provide recommendations for facilitating the transfer of capabilities from natural language to genetic language,as well as new approaches for conducting biological research based on this capability.This study offers an intriguing new perspective on exploring the relationship between natural language and genetic language.

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References · 11

  1. 2020XTREME: A Massively Multilingual Multi-task Benchmark for Evaluating Cross-lingual Generalizationcited by 742
  2. 2023BiomedGPT: A Generalist Vision-Language Foundation Model for Diverse Biomedical Taskscited by 201
  3. 2023HyenaDNA: Long-Range Genomic Sequence Modeling at Single Nucleotide Resolutioncited by 194
  4. 2019Emerging Cross-lingual Structure in Pretrained Language Modelscited by 181
  5. 2021Pre-trained Language Models in Biomedical Domain: A Systematic Surveycited by 87
  6. 2023ProtST: Multi-Modality Learning of Protein Sequences and Biomedical Textscited by 78
  7. 2024Probing the Emergence of Cross-lingual Alignment during LLM Trainingcited by 39
  8. 2023InstructProtein: Aligning Human and Protein Language via Knowledge Instructioncited by 28
  9. 2023Language Versatilists vs. Specialists: An Empirical Revisiting on Multilingual Transfer Abilitycited by 27
  10. 2024Genomic Language Models: Opportunities and Challengescited by 20
  11. 2023How Vocabulary Sharing Facilitates Multilingualism in LLaMA?cited by 12

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