Blake Sweeney

Viral non-coding RNA structure annotation and API-based data retrieval with Rfam and R2DT

The paper describes methods for automated viral ncRNA annotation and programmatic access to Rfam data via its API, enabling integration into bioinformatics workflows.

GOFlowLLM - Curating miRNA literature with Large Language Models and flowcharts

GOFlowLLM automates miRNA literature curation using LLMs and flowcharts, achieving high accuracy and efficiency in annotating gene silencing data.

First full-genome alignment representative for the genus Pestivirus

The paper provides the first full-genome multiple sequence alignment for all known pestivirus species and identifies conserved and novel RNA secondary structures.

RNAcentral in 2026: Genes and literature integration

RNAcentral integrates literature and gene-level data to enhance non-coding RNA sequence analysis and functional understanding.

R2DT: a comprehensive platform for visualising RNA secondary structure

R2DT is a software platform for visualizing RNA secondary structures with enhanced features like SNP display and template-free visualization.

Rfam 15: RNA families database in 2025

Rfam 15.0 expands coverage to 26,106 genomes, improves RNA family annotations with 3D structures, and synchronizes with miRBase, enhancing RNA research and machine learning applications.

Comprehensive Survey of Conserved RNA Secondary Structures in Full-Genome Alignment of Hepatitis C Virus

The paper identifies conserved RNA secondary structures in HCV genomes through full-genome alignment and analysis, showing conservation in specific regions like core, NS5A, and NS5B.

R2DT: computational framework for template-based RNA secondary structure visualisation across non-coding RNA types

R2DT generates standardised 2D RNA structure diagrams for diverse ncRNA types using a template library, producing a large dataset of visualisations.