ProkBERT family: genomic language models for microbiome applications.

ABSTRACT:

Background

In the evolving landscape of microbiology and microbiome analysis, the integration of machine learning is crucial for understanding complex microbial interactions, and predicting and recognizing novel functionalities within extensive datasets. However, the effectiveness of these methods in microbiology faces challenges due to the complex and heterogeneous nature of microbial data, further complicated by low signal-to-noise ratios, context-dependency, and a significant shortage of appropriately labeled datasets. This study introduces the ProkBERT model family, a collection of large language models, designed for genomic tasks. It provides a generalizable sequence representation for nucleotide sequences, learned from unlabeled genome data. This approach helps overcome the a

SUBMITTER: Ligeti B 

PROVIDER: S-EPMC10810988 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature