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This study presents the first high-contiguity genome of Melo melo, revealing gene family expansions linked to its predatory lifestyle and ecological adaptation.

The paper constructs a comprehensive gut microbiome reference database from Chinese and non-Chinese populations, revealing population-specific microbial features linked to host physiology.

This study examines the evolution of gig immune genes in teleosts, focusing on Atlantic salmon, revealing distinct evolutionary trajectories and regulatory mechanisms.

cfOncoXpress predicts tumor gene expression from cell-free DNA whole-genome sequences using fragmentation patterns and copy number aberrations, outperforming existing methods in prostate and breast cancers.

This paper introduces Decode-gLM, a toolkit using sparse autoencoders to interpret, audit, and steer genomic language models, revealing biological features and identifying data contamination.

PangyPlot is a genome browser that simplifies exploration of pangenome graphs, enabling visualization of genetic variation in populations with diverse haplotypes.

The paper identifies codon bias patterns and tRNA modification indices that influence translational programs in human tissues and cancers, revealing functional divergence and implications for mRNA therapeutics.

VariantFormer predicts gene expression from diploid genomes, outperforming existing models and improving eQTL effect size estimation across ancestries and tissues.

This paper calculates p-values for SNP effects in ssSNPBLUP models and compares them to GWAS in cattle populations, finding higher SNP reliability in larger reference populations.

The paper presents a single-nucleus RNA sequencing atlas of Aedes aegypti mosquitoes, identifying novel cell types and sexual dimorphism in gene expression across tissues.

The paper identifies somatic genomic alterations in neurons from CTE patients, finding patterns similar to Alzheimer's disease and suggesting mechanisms beyond repetitive head impacts.

The paper describes a method to conditionally control gene expression in Magnaporthe oryzae using a nitrogen-responsive promoter replacement.

This study compares two WGA kits for single-cell genome analysis, finding that PTA/ResolveDNA outperforms MDA/REPLI-g in quality metrics and CNV detection.

The paper develops tools to analyze phased genomes of polar fishes, revealing haplotype diversity in antifreeze protein copy numbers while mitigating assembly errors.

The paper uses shotgun metagenomics to analyze microbiomes and antimicrobial resistance in San Francisco Bay oysters, finding that matrix type, not location, structures microbiomes and biofilms are AMR hotspots.

This study identifies an expanded domoic acid biosynthesis gene cluster in Nitzschia navis-varingica through genome sequencing and biochemical validation, revealing its unique organization and evolutionary significance.

This study identifies CDK1 as a key regulator of CD4+ T cell effector function through integrative multi-omics analysis, showing its role in linking phosphorylation to gene regulation and immune traits.

The paper identifies tumor-specific and subtype-specific alternative promoters in TNBC and develops a prognostic model based on these promoters, showing improved risk prediction.

The paper presents the first genome assembly of Potamopyrgus antipodarum, revealing a recent whole-genome duplication and its potential role in asexuality transitions.

The paper introduces MAGIC, a platform combining imaging and genomics to study de novo chromosome rearrangements, finding that dicentric chromosomes initiate CA events and TP53 deficiency increases CA rates.