AIMC Journal:
bioRxiv

Showing 1781 to 1790 of 4956 articles

Integrating Metabolic Networks into Hybrid Bioprocess Models

bioRxiv Apr 24, 2026
The optimization and control of bioprocesses require robust in silico models that can accurately capture the complex and dynamic behavior of living cells. While hybrid models that combine machine learning with mechanistic equations have emerged as a ...
View on bioRxiv DOI

CellPulse: A Foundation Model of Coordinated Gene Dynamics Simulating Viral Infectious Diseases

bioRxiv Apr 24, 2026
Understanding how cells respond to perturbations like viral infections requires models capturing coordinated gene dynamics. However, current gene expression foundation models are predominantly reliant on single-cell data and static gene expression, l...
View on bioRxiv DOI

SNPic: SNP Topic Modeling for Interpretable Clustering of Complex phenotypes

bioRxiv Apr 24, 2026
Genome-wide association studies (GWAS) have cataloged thousands of disease-associated variants, yet a central challenge remains: decoding the shared, pleiotropic architecture that links complex phenotypes. Existing approaches, including dimensionalit...
View on bioRxiv DOI

On the predictability of progression-free survival in ovarian cancer from NanoString gene expression data

bioRxiv Apr 24, 2026
In the treatment of high grade serous ovarian cancer (HGSC), patients initially diagnosed with unresectable tumors are first treated with neoadjuvant chemotherapy (NACT) to reduce tumor burden prior to surgery. Analysis of matched pre- and post- NACT...
View on bioRxiv DOI

GenNA: Conditional generation of nucleotide sequences guided by natural-language annotations

bioRxiv Apr 24, 2026
Deciphering the mapping between linear biomolecular sequences and complex biological functions remains a central challenge in genomics. Although existing generative nucleotide language models have made substantial progress in modeling sequence distri...
View on bioRxiv DOI

Phylogenetic signal in herbicide resistance evolvability, and the use of phylogenies to predict herbicide resistance risk

bioRxiv Apr 24, 2026
The evolution of herbicide resistance in weeds is a problem affecting both food production and ecosystems. Numerous factors affect selection towards herbicide resistance making prediction of resistance evolution complicated. The potential for a speci...
View on bioRxiv DOI

Additive baselines furnish no evidence for epistasis learning by MULTI-evolve

bioRxiv Apr 24, 2026
Recent work from Tran et al. (Science, 2026) introduced MULTI-evolve, a framework for protein engineering that combines single-mutant nomination via a protein language model (PLM) or a deep mutational scan (DMS), experimental single- and double-mutan...
View on bioRxiv DOI

MVCBench: A Multimodal Benchmark for Drug-induced Virtual Cell Phenotypes

bioRxiv Apr 24, 2026
Drugs induce coordinated phenotypic changes across multiple modalities, including transcriptional reprogramming and cellular morphological remodeling. Predicting these drug-induced modality changes is central to drug discovery, mechanism-of-action st...
View on bioRxiv DOI

Housekeeping Gene Expression Normalization in Transcriptomics Mitigates Data Leakage in Machine Learning Models

bioRxiv Apr 24, 2026
Background: Inappropriate normalization can lead to data leakage and overfitting in machine learning models. Accurately identifying housekeeping genes (HKGs) can overcome this problem and is crucial for normalizing gene expression data, particularly ...
View on bioRxiv DOI

Decoding Smell from Receptor Structure

bioRxiv Apr 24, 2026
Olfaction enables animals to detect and discriminate a vast array of chemicals, yet how odorant receptors (ORs) encode ligand selectivity remains unclear. Although recent advances in protein structure prediction have expanded access to OR structures,...
View on bioRxiv DOI
Popular Topics
Popular Journals