Vladislav V. Babenko

Snappy identifies DNA methylation sites in bacteria using Oxford Nanopore reads without requiring control samples or motif enrichment heuristics.

The paper reports the genome of Nuclearia thermophila, showing it shares more protein domains with Holozoa than other Holomycota groups.

Snapper is a high-sensitive algorithm for detecting methylation motifs from Oxford Nanopore reads, showing improved enrichment sensitivity over existing tools and identifying new methylation sites in H. pylori.

The paper reports the spontaneous formation of DNA-DNA junctions in solution, visualized by atomic force microscopy, and suggests a new role for noncanonical structures in chromatin architecture.

The paper analyzes the respiratory tract microbiota in COVID-19 patients to find associations between microbiota composition and disease severity.

BioCAT is a tool that identifies biosynthetic gene clusters for nonribosomal peptides using structure-based search and improves upon existing methods with position-specific scoring and ensemble modeling.

The paper annotates the Hirudo medicinalis genome and analyzes salivary transcriptomes of three leech species to identify salivary cell-specific genes and update knowledge on blood-sucking mechanisms.

This study compares dsDNA bacteriophage diversity in stabled and feral horses, finding higher richness and even distribution compared to human viromes, with no over-represented phage genotypes.

This study uses whole genome sequencing to analyze gut microbiota changes after Helicobacter pylori eradication therapy, finding reduced alpha-diversity, shifts in metabolic potential, and increased antibiotic resistance genes.