Discover, rate, and discuss biology preprints.

The paper introduces GenSyntax, a large language model for prokaryotic genomes that captures functional context, achieving competitive performance in genome-scale tasks.

VISTA infers spatial gene expression from H&E images, predicting gene expression and clinical outcomes in cancer samples.

The paper identifies a chloroplast kinase, ABC1K7, under strong purifying selection in seed plants, with a single amino acid change in coconut linked to domestication traits.

fastVEP is a fast, comprehensive variant effect predictor implemented in Rust, outperforming the Perl-based Ensembl VEP in speed while maintaining accuracy.

This study analyzes mutations in the Praziquantel target gene Sm.TRPMPZQ in schistosome populations from Western Kenya to assess their role in drug resistance.

The paper detects coronaviruses, paramyxoviruses, and rhabdoviruses in Ugandan bat species, identifying viral prevalence and species associations.

The paper identifies adaptive hematopoietic and immune reprogramming in discordant monozygotic twins with intrauterine growth restriction through transcriptomic and epigenomic analyses.

The paper introduces a machine learning framework to detect high-order genetic interactions in GWAS by encoding decision paths from classification trees as features, improving model accuracy and interpretability.

The paper characterizes type III effector diversity and conservation across Xanthomonas pathogens causing bacterial spot of pepper and tomato, revealing core effectors and population-specific variation.

This study compares transcriptomes of salt-tolerant and susceptible bluebunch wheatgrass genotypes to identify molecular mechanisms underlying salt tolerance.

The paper introduces a metric called DLR to identify population bottlenecks by analyzing olfactory receptor gene evolution across multiple mammalian species.

The paper identifies diet-responsive cis-pQTLs in humans following short-term animal product restriction, revealing diet-dependent genetic regulation of proteins involved in metabolism and immunity.

eRREMS improves CpG coverage in methylome sequencing by combining MspI and HaeIII digestion, outperforming RRBS and WGBS in capturing regulatory CpGs.

The paper identifies transcriptomic differences between pigs with high and low nitrogen use efficiency under protein-reduced diets, highlighting tissue-specific metabolic adaptations.

BLink-seq is a scalable Haplotagging method for generating phased haplotypes and detecting structural variants in non-model species using short-read sequencing.

The paper identifies crossover events in cattle using haplotype-resolved assemblies and methylation data from long-read sequencing, finding more events in half-siblings than in cousins.

This study identifies how epigenetic changes and spatial clustering influence immune dynamics and therapy resistance in melanoma through single-cell and spatial transcriptomics analyses.

This study compares genomic signatures of natural selection across Senegalese, Thai, and Peruvian populations to identify immune-related adaptive variants with implications for region-specific vaccine development.

The paper identifies conserved long G4-rich (LG4) enhancer regions across 16 species and finds a highly conserved LG4 enhancer regulating over 40 genes in human and mouse.

This study shows that LAP2 depletion in fibroblasts causes chromatin reorganization, A-type lamin binding to open regions, and changes in gene expression and chromatin remodeler distribution.