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The paper identifies conserved influenza A epitope regions and evaluates ESM-2 sequence features for epitope prioritization, finding no significant improvement over alignment-based conservation.

EpiBinder predicts cell-type-specific TF binding by integrating DNA sequence and epigenetic data, improving prediction accuracy and providing interpretability.

This study infers nodavirus zoonotic transmission networks and explores genetic diversity using publicly available sequencing data.

The paper introduces RepTile, a framework to infer single-cell replication states from imaging data, revealing locus-specific dependencies of replication initiation on subnuclear position.

The paper maps context-dependent genetic regulation of cardiometabolic loci in human adipocytes using a multi-donor cell village system and single-nucleus multiome sequencing under various metabolic stress conditions.

The paper uses BioBERT to extract and analyze antimicrobial resistance gene transmission patterns from 204,094 publications, visualizing ARG spread across environments, hosts, and agriculture.

The paper uses long-read RNA-Seq to show that male isoform richness in Poecilia reticulata reflects transcriptional noise rather than proteomic complexity.

This study identifies a conserved regenerative program in adult zebrafish skeletal muscle repair following different injury types, showing shared transcriptional responses and functional modules.

The paper presents a chromosome-level genome assembly for the European leaf-toed gecko, providing a high-quality reference for studying genome evolution and sex chromosome dynamics.

The paper develops CRISPR-Cas9 delivery methods for primary human hepatocytes to enable efficient gene editing and screening of HBV host factors.

The paper analyzes genetic diversity and inbreeding in 512 vertebrate genomes to assess their relationship with extinction risk, finding ecological factors are stronger predictors than genetic measures.

This study identifies how maternal diet and genetics influence the human milk metabolome, showing diet explains the most variation and uncovering genetic associations with specific metabolites.

This study analyzes ancient and present-day Central Eurasian genomes to assess archaic hominin introgression, finding stable levels of Neanderthal and Denisovan ancestry over time.

The paper identifies host gene-expression signatures that distinguish bacterial, viral, and inflammatory diseases in febrile children across multiple cohorts, achieving high diagnostic accuracy.

Local ancestry methods on 176 imputed Neolithic genomes disagree on tract lengths; replicated meta-analysis supports selection at SLC24A5 and FADS1/2, while HLA signals look artefactual.

The paper characterizes the miRNome of African green monkey cerebrospinal fluid, identifying conserved miRNAs relevant to human neurodegenerative diseases and highlighting species-specific variations.

Trex-QTL identifies trans-eQTLs with global effects on molecular phenotypes, showing improved power and replicating known loci in rat brain data.

SQUINT learns discrete cell and niche codes from spatial transcriptomics data using residual vector quantization, outperforming baselines in identification and cross-section integration.

The paper presents a chromosome-scale genome assembly of Contortylenchus reversus and analyzes its population structure and host associations using genomic data from host beetles.