Benchmarking the methods for predicting base pairs in RNA-RNA interactions.

ABSTRACT:

Motivation

The intricate network of RNA-RNA interactions, crucial for orchestrating essential cellular processes like transcriptional and translational regulations, has been unveiling through high-throughput techniques and computational predictions. As experimental determination of RNA-RNA interactions at the base-pair resolution remains challenging, a timely update for assessing complementary computational tools is necessary, particularly given the recent emergence of deep-learning-based methods.

Results

Here, we employed base pairs derived from three-dimensional RNA complex structures as a gold standard benchmark to assess the performance of 23 different methods ranging from alignment-based methods, free-energy-based minimization to deep-learning techniques. The result ind

SUBMITTER: Lang M 

PROVIDER: S-EPMC12141194 | biostudies-literature | 2025 Jun

REPOSITORIES: biostudies-literature