bioRxiv: Bioinformatics Preprints · Scour

Anthocyanin-associated cellular programs underlying terroir variation in Cabernet Sauvignon grape berry revealed by SEED-based deconvolution

Quantifying Evidence for Competing Biomedical Hypotheses using Large Language Models and Bayesian Analysis

Multi-level, multi-body atomic interaction graphs for machine learning-based prediction of protein-ligand binding energies

KDM: embedding DNA/RNA motifs and sequences in a shared k-mer space for unified discovery, analysis and binding prediction

GLOF: A large-scale expert-curated benchmark dataset of gain-of-function and loss-of-function missense variants

Fasting Status and Epigenetic Clock Stability: Implications for Aging Research

BacteReason: A Reasoning Model for Antimicrobial Resistance Prediction

CREP: Cis-Regulatory Element Predictor Based on Fine-Tuned Enformer

Ontologizer 3: a cross-platform desktop application for frequentist and Bayesian GO enrichment analysis

CLASPP: A unified model for predicting post-translational modifications

Learning quality scores for chromatin accessibility bigWig tracks using Machine Learning

Using protein language models for pangenome construction

Structure-guided compound prioritization strategy for virtual screening identifies putative binders for the nuclear receptor LRH-1

CryoDiff: An uncertainty-aware diffusion model for Cryo-EM map enhancement

Finetuning masking challenges narrow-task evaluation of cell foundation models

scMTG reconstructs single-cell temporal dynamics with Markov transition generators

Enformer-Based Phylogenetic Tree Reconstruction

TDKC (Target Distilled K-mer Classifier): Ultrafast and Memory-Efficient Sequence Classification for Target Pathogen Diagnostics

Expert-Guided Supervised Annotation of Erythroid Differentiation in Single-Cell RNA-seq

Divergent Loop Architecture Shapes Pocket2 Variation in Shark Legumains

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