Discover, rate, and discuss biology preprints.

This paper integrates AMR surveillance data from multiple sources across Africa and visualizes them using GIS dashboards to highlight disparities and improve AMR monitoring.

π-MNovo improves de novo peptide sequencing for metaproteomics by adapting to microbial spectra and selecting candidates based on evidence, achieving higher recall than existing models.

The paper integrates glycosylation filtering into a protein design pipeline to improve efficiency and reduce costs in binder design.

The paper develops a computational model for Zika virus sequence and secondary structure analysis using VADR, achieving high validation accuracy and extending the tool to generate structural diagrams and submit new RNA elements.

MutCleaner standardizes mutation datasets for variant effect prediction by cleaning, validating, and organizing mutation records across 16 datasets with over 12.14 million entries.

DELPHI is an open platform for predicting antibody developability from sequence, achieving high AUC scores and enabling residue-level engineering insights.

The paper implements a differentiable AdEx neuron model with surrogate gradients, showing it is faster than traditional methods but gradient-based fitting still struggles with spike mechanisms.

The paper identifies RSX interactors and shows they form phase-separation-prone networks, suggesting convergent evolution of XCI mechanisms through biophysical principles rather than sequence or structure.

The paper evaluates cross-species survival modeling in osteosarcoma, finding that prognostic compatibility does not ensure safe transfer utility due to negative transfer and model-selection bias.

The paper introduces a method to interpolate and extrapolate node counts in colored compacted de Bruijn graphs to compare pangenomes while accounting for genome number variability and rare sequence influence.

Crumblr is a statistical method for analyzing changes in cell type composition across studies, showing increased power over existing methods in simulations and applied to multiple single-cell RNA-seq datasets.

AptViralDB is a manually curated database of 1,768 experimentally validated antiviral aptamers against 40 viruses and 104 targets, offering annotations, predicted structures, and search tools.

The paper compares single-cell and aggregated morphological profiling to identify programmed cell death mechanisms, finding aggregated data performs better in supervised models.

NoroScope uses context-aware machine learning to prioritize amino-acid substitutions in the norovirus capsid protein, achieving high precision in predicting mutation effects with limited data.

miRstring decodes mature miRNA boundaries from precursor context across species and designs artificial miRNAs effectively.

This paper introduces PLABench, a benchmarking framework for protein-ligand binding affinity prediction, revealing that structural input and training scale alone do not ensure cross-target generalization.

This paper introduces Leff, a spectral measure to quantify effective information in multiple sequence alignments, showing evolutionary constraints reduce sequence diversity in RNA and proteins.

The paper addresses volumetric cell segmentation challenges due to limited labelled data by using synthetic 3D objects to generate unlimited training data, achieving accurate segmentations of real biological data.

The paper introduces DYNAM-O, a toolbox for analyzing sleep EEG to identify individualized transient oscillations, finding sex differences in oscillatory activity.

Kmask reduces misclassifications in metagenomics by masking low-complexity regions, improving accuracy in bacterial, archaeal, viral, and fungal classification.