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This paper presents a chromosome-scale genome assembly for Oxalis stricta, revealing its allotetraploid nature and synteny with related species.

The paper shows that end-repair in double-stranded DNA libraries reduces CpG methylation estimates and tissue origin accuracy, while trimming read termini mitigates this bias but reduces coverage.

The paper uses genomic analysis to trace the introduction routes of pathogenic B. gladioli strains into Bangladesh and identifies virulence gene changes associated with host transitions.

The paper describes eight new cyanobacterial species and one new genus from Hawaiian steam vents using genome-based classification and phylogenomic analysis.

This study identifies genomic strategies and trait trade-offs in pyrophilous fungi that enable survival and nutrient cycling post-fire, revealing gene duplication, horizontal gene transfer, and sexual recombination as key evolutionary mechanisms.

Dosa covalently bars proteins for high-throughput biochemical analysis by linking variants to RNA barcodes via a methyltransferase, enabling assessment of protein function through direct biochemical assays.

This study identifies and classifies 57 WRKY genes in Lagenaria siceraria, revealing their structural organization, evolutionary expansion, and tissue-specific expression patterns.

The paper examines prenatal environmental factors affecting CYP19A1 promoter methylation in cord blood using WQS regression, finding associations with bisphenols, sunlight, mould, phthalates, folate, and air pollution.

The paper identifies histone H4 as a repressor of histone gene transcription during G2 phase in germline cells, showing conserved repression across Drosophila and human cells.

The paper identifies 15,836 noncoding splice isoforms in human mRNA from 7,298 protein-coding genes, showing tissue-specific expression and association with cancer.

The paper improves sequence-to-activity models by incorporating ATAC-seq profiles, enhancing predictions of chromatin accessibility across immune cell types.

DipGNNome introduces a deep learning framework for diploid genome assembly using graph neural networks and beam-search, achieving results comparable to state-of-the-art methods.

XhetRel analyzes X heterozygosity and relatedness in sequencing data to improve quality control and identify sources of error in variant calling.

This paper identifies and characterizes the cucumber kinome, revealing its genomic distribution, classification, and expression patterns in response to powdery mildew infection.

The paper compares self-declared and genome-inferred ancestry in 10,250 HostSeq participants, finding high concordance for some groups and lower for others, highlighting the complexity of admixture and the need for complementary approaches.

CanDrivR-CS distinguishes recurrent and rare cancer variants using cancer-specific gradient boosting models, achieving high F1 scores in cross-validation.

This study evaluates room temperature preservation methods for mosquitoes to generate high-quality reference genomes, finding that squished samples in ethanol or Allprotect work best for Hi-C data.

The paper presents a chromosome-level reference genome for Chrosomus eos and analyzes its syntenic relationship with the zebrafish genome.

The paper introduces a framework to assess RNA velocity stability using count splitting and replicate coherence, showing performance differences across methods and guiding model selection.