bioRxiv: Bioinformatics Preprints · Scour

OpenBase: a universal framework for high-accuracy single-molecule detection of diverse non-canonical DNA bases using nanopore sequencing

PrEditR: A protein-centric platform for CRISPR-mediated base editor sgRNA design

TAMIPAMI: Software and methods for PAM/TAM identification for CRISPR and OMEGA gene editing systems

Hidden State Genomics: Graph-Based Analysis of Sparse Auto-Encoder Feature Activity in Genomic Language Models

A unified benchmark of synthetic data generation for clinical transcriptomic cancer cohorts

Learning from Drops: AI-Guided Integration of Liquid Biopsy Features in Cancer Studies

A comparative analysis of urinary microbiome identifies putative probiotics

KaryoScope: rapid, alignment-free sequence annotation for the pangenome era

cfMIND: A read-level methylation framework for accurate non- invasive disease detection using cell-free DNA

From Peaks to Power: Systematic Evaluation of Chromatographic Sampling Reveals Determinants of Quantification and Biological Discovery in DIA Proteomics

Tsallis-Gated Autoencoder: A Nonextensive Physics-Informed Approach for Unsupervised Anomaly Detection in Glioblastoma Multiforme RNA-seq Data

CatIF-RL: Activity-Oriented Enzyme Sequence Design by Steered Inverse Protein Folding

Pan-Viral Conformational Landscapes of Frameshifting Elements Reveal Length-Dependent Plasticity and Antisense-Driven Structural Reprogramming

Improving Variant Effect Prediction by Steering Sparse Mechanistic Features in Protein Language Models

S2F-agent: Skill-grounded agent for Sequence-to-Function computational genomics workflows

Deep learning models for chemical perturbation prediction do not yet utilise drug molecular features

BTEXgenie: A curated and user-friendly tool for profile HMM-based substrate-specific annotation of BTEX degradation genes

Metabolic Self-Organization: Emergence of Autonomous Agency in a Metabolically Constrained LLMs

Testing the mutation accumulation hypothesis in aging with AlphaGenome

TwinSAR: An Adaptive Kernel-based Algorithm with logit-transformed Z-score Filtering for Chemical Twin Detection in Large-scale Virtual Screening

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