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Shared and divergent features of the immune response to acute and chronic Trypanosoma cruzi infection in mice revealed by cardiac transcriptomics

This study uses cardiac transcriptomics in mice to compare immune responses during acute and chronic Trypanosoma cruzi infection, identifying shared and divergent features.

Ancient U/V sex chromosomes reveal slow expansion of recombination suppression in Polytrichaceae mosses.

This study analyzes ancient U/V sex chromosomes in Polytrichaceae mosses, showing that recombination suppression has limited SDR expansion and functional degeneration despite their 124 million-year-old origin.

A generative network model reveals hierarchical structural memory guiding post-mitotic 3D genome inheritance

The paper introduces HiCONA, a Bayesian framework that identifies mitotically preserved chromatin interactions guiding post-mitotic 3D genome reassembly and epigenetic memory.

Synthetic MPRA perturbation supervision improves variant-effect prediction in sequence-to-function models

This paper improves variant-effect prediction in sequence-to-function models using synthetic MPRA data generated from distilled model predictions.

Transcriptional contingency in the early hematopoiesis of inherited bone marrow failure syndromes

This study integrates and analyzes scRNA-seq data from hematopoietic stem and progenitor cells of patients with Fanconi anemia and Telomere Biology disorders, identifying distinct gene expression profiles and shared transcriptional programs.

Urban enrichment of molestus ancestry and opposing temperature clines in a metropolitan Culex pipiens hybrid zone

The paper examines ancestry patterns and temperature effects in a Culex pipiens hybrid zone, finding urbanization increases molestus ancestry while temperature influences locus-specific ancestry.

Comparative genomics of canonical antifungal dsRNA target genes across fungal plant pathogens: conserved siRNA-length windows define the scope for broad-spectrum spray-induced gene silencing

This study evaluates the conservation of antifungal dsRNA target genes across fungal plant pathogens at siRNA-length resolution, finding limited conservation beyond closely related species.

Fentanyl and fentanyl-xylazine co-exposure influence mitochondrial transcriptional programs in human trophoblasts

This study examines how fentanyl and fentanyl-xylazine co-exposure affect mitochondrial transcription in human trophoblasts, showing suppression in syncytiotrophoblasts and discordant regulation with FMX.

Multi-modal in situ profiling of human cells using the AVITI24 platform characterizes single-cell responses to acute stress

The paper uses a multi-modal platform to profile single-cell stress responses in human cell lines, finding a shared stress response program with cell-specific magnitude variations.

A Chromosome Scale Genome Assembly for the Australian blue mussel Mytilus planulatus

The paper presents the first chromosome-scale reference genome for Mytilus planulatus, revealing structural variation and population structure in mussels.

Quantifying heritability in functional regions of the coding and non-coding genome across diverse individuals

The paper estimates whole-genome heritability of complex traits across diverse populations, finding rare and non-coding variants significantly contribute to heritability.

Ultrasensitive detection of neuronal DNA using genome-wide non-CG methylation patterns

This paper detects neuronal DNA in cfDNA using non-CpG methylation patterns, finding elevated levels in neurological conditions and brain-dead donors.

An Isogenic iPSC Model of LMNA p.R482W Recapitulates Adipocyte Dysfunction in Familial Partial Lipodystrophy Type 2

This paper develops an isogenic iPSC model of FPLD2 carrying the LMNA p.R482W variant, showing adipocyte dysfunction including insulin resistance and metabolic impairment.

Recurrent mitotic error and purifying selection shape chromosomal mosaicism across human tissues

This study identifies mosaic chromosomal alterations in healthy human tissues, revealing tissue-specific patterns of mitotic errors and purifying selection across aging.

Integrating pangenome and imputation framework reveals structural variants affecting stature and milk composition traits in French dairy cattle

The paper integrates long-read, short-read, and SNP data using a pangenome and imputation framework to identify structural variants associated with stature and milk traits in dairy cattle.

Gene Embedding Hub: a standardized resource for human gene representations

The paper introduces a standardized resource of human gene embeddings derived from diverse biological data sources, enabling comparison and use across modalities.

Twenty-five new microsporidian genomes: Insights into ploidy, reproduction, and the group's pangenome

The paper presents 25 new microsporidian genomes, revealing extreme pangenome diversity and novel tetraploid structures in some species.

FiberBrowser: a unified framework for single-molecule genomics

FiberBrowser converts diverse single-molecule footprinting datasets into a unified representation for analyzing chromatin structure and function across assays.

The metabolic resistance blueprint: Genomic dissection of DDT resistance in historical kdr-free East African Anopheles gambiae

This paper identifies genomic loci and mutations associated with DDT metabolic resistance in Anopheles gambiae using bulk segregant analysis and confirms their selection in natural populations.

Organisms associated with siphonophores revealed by short-read whole-genome sequencing

The paper analyzes DNA captured during siphonophore genome sequencing to identify associated organisms, revealing bacterial and eukaryotic diversity.