bioRxiv: Bioinformatics Preprints

Constrained Evolutionary Design of Matrixyl Analogs: Balancing Permeability and Functional Preservation Through Computational Optimization

biorxiv.org·

mehari: high-performance, strict HGVS-first variant effect prediction

biorxiv.org·

BRIDGE-GRN: Role-Aware Bi-Tower Graph Learning with Cross-View Contrast for Directed Gene Regulatory Network Inference

biorxiv.org·

Classic machine learning on top of multiple position weight matrices improves genomic prediction of transcription factor binding sites

biorxiv.org·

Predicting Biological Age and Clinical Biomarkers from DNA Methylation Profiles of Cheek Mucosa

biorxiv.org·

Cataloging cysteines in ECOD domains using a protein language model

biorxiv.org·

Benchmarking Boltz-2 for Screening of Therapeutic Antibody-Antigen Interactions

biorxiv.org·

End-to-end mapping of membrane transport from chemical structure to microorganisms

biorxiv.org·

OmniGene-4: A Unified Bio-Language MoE Model with Router-Level Interpretability

biorxiv.org·

MethylCurate: Tool For Dataset Curation and Epigenetic Aging Clock Evaluation

biorxiv.org·

GlyComboCLI enables command line-based FAIR workflows for glycan composition assignment in mass spectrometry data

biorxiv.org·

LOCALE: Local-Alignment Embeddings for Noise-Robust DNA Search at SRA Scale

biorxiv.org·

Structure tokens sharpen the feature vocabulary of protein language models

biorxiv.org·

PXN Unlocks the Power of Public Gene Expression Data Through Cross-Technology Integration

biorxiv.org·

Viral non-coding RNA structure annotation and API-based data retrieval with Rfam and R2DT

biorxiv.org·

Anatomy-Guided 3D Graph Networks for Couinaud Segmentation in Tumor Affected Livers

biorxiv.org·

BiomniBench: Process-level Evaluation of LLM Agents for Real-world Biomedical Research

Protein solubility depends on centrifugation: Aiki-Sol, a per-regime predictor for E. coli

Differential Analysis of Gene Spatial Organisation with Minkowski Functionals and Tensors

Constrained Evolutionary Design of Matrixyl Analogs: Balancing Permeability and Functional Preservation Through Computational Optimization

mehari: high-performance, strict HGVS-first variant effect prediction

BRIDGE-GRN: Role-Aware Bi-Tower Graph Learning with Cross-View Contrast for Directed Gene Regulatory Network Inference

Classic machine learning on top of multiple position weight matrices improves genomic prediction of transcription factor binding sites

Predicting Biological Age and Clinical Biomarkers from DNA Methylation Profiles of Cheek Mucosa

Cataloging cysteines in ECOD domains using a protein language model

Benchmarking Boltz-2 for Screening of Therapeutic Antibody-Antigen Interactions

End-to-end mapping of membrane transport from chemical structure to microorganisms

OmniGene-4: A Unified Bio-Language MoE Model with Router-Level Interpretability

MethylCurate: Tool For Dataset Curation and Epigenetic Aging Clock Evaluation

GlyComboCLI enables command line-based FAIR workflows for glycan composition assignment in mass spectrometry data

LOCALE: Local-Alignment Embeddings for Noise-Robust DNA Search at SRA Scale

Structure tokens sharpen the feature vocabulary of protein language models

PXN Unlocks the Power of Public Gene Expression Data Through Cross-Technology Integration

Viral non-coding RNA structure annotation and API-based data retrieval with Rfam and R2DT

Anatomy-Guided 3D Graph Networks for Couinaud Segmentation in Tumor Affected Livers

A novel method to select Reference Proteomes in UniProt