Discover, rate, and discuss biology preprints.

The paper identifies large deletion variants in the PIMMS43 gene of Plasmodium falciparum and shows their geographic frequency variation and potential vector-specific selection.

The paper introduces TUF, a framework to quantify uncertainty in single-cell trajectory analysis, identifying transitional and branch-point cell states across multiple datasets.

Binary-SPA improves cell type annotation in spatial transcriptomics by using a two-stage approach without requiring external reference data.

The paper develops a workflow to detect and classify alternative microproteins in colorectal cancer cells, identifying biases in extraction methods and validating a subset experimentally.

This paper presents a standardized whole-genome variant dataset of 547 grapevine accessions, including domesticated and wild Vitis species, for genetic and genomic research.

The paper reanalyzes TE-gene splicing in Drosophila brain data, showing TE exonisation is common and validates previous findings despite conflicting results from another study.

This study uses single-cell RNA sequencing to reveal how Wolbachia infection progresses through distinct transcriptional phases in Drosophila cells.

FORGEPHAST simulates large synthetic cohorts with controlled genetic and phenotypic properties, showing polygenic risk score performance varies by phenotype architecture, ancestry, and variant coverage.

The paper maps cognitive impairments in ALS by integrating spatial and single-nucleus transcriptomics, revealing distinct cellular and molecular patterns in language and executive dysfunction.

The paper identifies multi-enhancer regulatory hubs critical for Th17 cell identity by analyzing chromatin accessibility and enhancer function in mouse CD4+ T cell subsets.

The paper constructs genomic resources for Ascidiella aspersa and 35 other tunicate species, revealing class-level genomic features and evolutionary patterns through comparative analysis.

FetchR provides a user-friendly pipeline for local RNA-Seq analysis, integrating quality control, visualization, and differential expression without requiring advanced computational skills.

TERRA is a foundation model for spatial transcriptomics that predicts tissue behavior under perturbation and identifies multi-scale biological insights across tissues.

GAMETE maps chromatin accessibility genetic architecture in rice pollen using single-nucleus ATAC-seq and genotype inference, revealing cell-type-specific caQTLs and chromatin dynamics.

The paper identifies the CSD locus in Bombus terrestris, showing its conservation across hymenopteran species and implications for population management.

This paper performs a meta-QTL analysis to identify genetic regions associated with pathogen resistance in rainbow trout, refining QTLs and identifying candidate genes involved in immune pathways.

The paper investigates how transcription factor binding site position and chromatin context influence gene regulation in plants, revealing distinct regulatory roles for different genomic locations.

The paper constructs a single-cell RNA-Seq atlas of the periventricular proliferative zone in late-gestation pigtail macaque fetal brain, revealing cell states similar to human fetal brain.

The paper investigates the role of Rsp-derived small RNAs in the Segregation Distorter drive system in Drosophila melanogaster, showing haplotype-specific variations in their contribution to drive strength.

The paper investigates the G4 paradox across eukaryotic genomes, finding compartment-dependent selection regimes that maintain G4 structures in regulatory regions and suppress them in coding sequences.