bioRxiv: Bioinformatics Preprints · Scour

The ATLAS Penalty: Auxiliary-Transformed Location-Aware Smoothing with Applications to Spatial Transcriptomics

Deciphering interaction syntax via decoupling intrinsic lineages and niche pressure

Geometric averaging provides normalization-invariant feature ranking in compositional sequencing data

cadmus: a robust pipeline for scalable retrieval of full-text biomedical literature

Computational Design of Novel Selective Phosphodiesterase 4B Inhibitors from Natural Products: An Integrated Machine Learning and Structure-Based Drug Discovery...

AbSolution and ENCORE: a proof-of-concept for automating computational reproducibility in interactive applications

BioGAIP: A Scalable, User-Friendly and Robust LLM-Powered Multi-Agent System for Automated Bioinformatics Tasks

DistPCA: Tera-Scale Genomic PCA via Out-of-Core Distributed Parallelism

Multi-Scale Tri-Modal Histology Dataset Integrating Tumor Morphology, Immune Patterns, and Clinical Outcomes

PocketBagger: Generalizable pocket druggability prediction via positive-unlabeled learning

Cross-Cohort Optimal Transport Maps Macrophage Plasticity and Competing Routes to Inflammation and Fibrosis in Human Atherosclerotic Plaques

Sequence alignment of the primate lineage reveals evolutionary divergence and conserved secondary structural motifs in noncoding RNAs

Stereochemistry-Aware Drug-Target Affinity Prediction

Combining amino acid frequency and 1D convolutional neural network embeddings for the identification of protein-protein interactions using a random forest class...

Learning Chirality-Aware Representations to Predict Drug Side Effect Frequencies

HESTIA: Scalable Multimodal Integration of Histology and High-Resolution Spatial Transcriptomics for Robust Spatial Domain Identification

Nutritional-Metabolic Lipid Profiling with LipidOne for plasma lipidomics interpretation in metabolic health

Interpretable Predictive Modeling for Medical Data Using Boolean Rule-aware Regression

Elab2ARC: A Browser-Based Workspace for Converting Free-Text Protocols into rich FAIR digital objects

Discriminative learning of substitution matrices and gap penalties for pairwise alignment of biological sequences

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