Trainable computation in molecular networks https://www.biorxiv.org/content/10.64898/2025.12.28.696421v1

Python Encoders for Archetypal Convex Hulls (PEACH): PyTorch-Based Archetypal Analysis https://www.biorxiv.org/content/10.64898/2025.12.29.696912v1

Rejuvenation of white adipose tissue in a longitudinal heterochronic transplantation model https://www.biorxiv.org/content/10.64898/2025.12.28.696721v1

Meditation as a Bioactive Intervention: Molecular and Neurophysiological Mechanisms Revealed by Connectivity Mapping https://www.biorxiv.org/content/10.64898/2025.12.27.696659v1

Abscisic acid-mediated water stress regulation can mechanistically explain oscillations and water stress memory in stomatal conductance https://www.biorxiv.org/content/10.64898/2025.12.26.696581v1

High dimensional tissue specific regulatory codes embedded in viral coding regions https://www.biorxiv.org/content/10.64898/2025.12.27.696677v1

The geometry of cooperation: decoding microbial interactions https://www.biorxiv.org/content/10.64898/2025.12.22.696080v1

Assessment of methods for network analysis of single-time-point microbial samples https://www.biorxiv.org/content/10.64898/2025.12.26.696561v1

Agent-based modeling demonstrates how target-independent processes supplement killing by antibody-drug conjugates in cancer therapy https://www.biorxiv.org/content/10.64898/2025.12.26.696346v1

Quasineutral dynamics shape coexistence and clearance in a model ofin vitro phage-bacteria interactions https://www.biorxiv.org/content/10.64898/2025.12.25.696485v1

Structural and Boolean Network Modeling of the Levan Biosynthetic Pathway in Bacillus subtilis. https://www.biorxiv.org/content/10.64898/2025.12.25.696451v1

Antibody-based signal amplification for single-cell proteomics by mass spectrometry https://www.biorxiv.org/content/10.64898/2025.12.22.695898v1

Maximal human lifespan in light of a mechanistic model of aging https://www.biorxiv.org/content/10.64898/2025.12.22.695887v1

Functionalist Oncology to Model the Contextuality of Dynamics and Treatment in Acute Myeloid Leukemia https://www.biorxiv.org/content/10.64898/2025.12.22.695906v1

Modulation of signal response by small RNAs through feed-forward loops https://www.biorxiv.org/content/10.64898/2025.12.22.696124v1

A yeast model of 5-oxoproline accumulation reveals a general toleration to 5-oxoproline https://www.biorxiv.org/content/10.64898/2025.12.21.695865v1

An interplay between cytoplasmic flow and cell morphology during cytokinesis simulated by the moving-particle semi-implicit method https://www.biorxiv.org/content/10.64898/2025.12.22.695877v1

Intrinsic Molecular Timers and a Biphasic Amplitude Limit Regulate the Integrated Stress Response https://www.biorxiv.org/content/10.64898/2025.12.20.694968v1

Machine Learning Reveals Proteome-Encoded Growth Predictors of Rhodopseudomonas palustris CGA009 on Lignin Aromatics https://www.biorxiv.org/content/10.64898/2025.12.19.695510v1

From Light to Lipids: Constraint-Based Metabolic Modeling of Nannochloropsis oceanica Under Light Acclimation Conditions https://www.biorxiv.org/content/10.64898/2025.12.19.695437v1

A Heterogeneous Graph Framework for Inference of Metabolite-Protein-Drug Interaction Networks https://www.biorxiv.org/content/10.64898/2025.12.18.695016v1

Systematic overexpression reveals a conserved spectrum of harmful and beneficial amino acid homorepeats shaped by evolution https://www.biorxiv.org/content/10.64898/2025.12.19.695406v1

Susceptibility of Glucose Regulation to Social Isolation https://www.biorxiv.org/content/10.64898/2025.12.18.695168v1

Systems-level analysis identifies protein-RNA interactions contributing to autotrophy of Clostridium autoethanogenum https://www.biorxiv.org/content/10.64898/2025.12.18.695208v1

Functional modules predict cancer-relevant genetic interactions in mammalian cells https://www.biorxiv.org/content/10.64898/2025.12.18.695201v1

Genetic regulators of neuronal survival across metabolic environments https://www.biorxiv.org/content/10.64898/2025.12.19.695350v1

Multi-omics investigation reveals molecular determinants of cancer cell evolution on soft extracellular matrix https://www.biorxiv.org/content/10.64898/2025.12.17.694784v1

Succession-diagram-based Markov chains reveal the attractor landscape of asynchronous Boolean networks https://www.biorxiv.org/content/10.64898/2025.12.17.694936v1

Fundamental errors in RNA velocity arising from the omission of cell growth https://www.biorxiv.org/content/10.64898/2025.12.18.695252v1

Thermo-Dynamic Flux Balance Analysis, a novel approach to simulate circadian metabolism https://www.biorxiv.org/content/10.64898/2025.12.17.694837v1

Refining liquid chromatography conditions across platforms to democratize single-cell proteomics https://www.biorxiv.org/content/10.64898/2025.12.16.694739v1

GFP Reporter System Reveals Cell-to-Cell Variability in Aquaporin-2 Expression https://www.biorxiv.org/content/10.64898/2025.12.16.694664v1

Linking structure to function in high performing electrosynthetic biofilm communities https://www.biorxiv.org/content/10.64898/2025.12.16.694578v1

A database of over 15.000 strain design publications reveals a conserved set of metabolic engineering targets across microbial hosts and products https://www.biorxiv.org/content/10.64898/2025.12.15.694291v1

Simulation-templated photorealistic prediction of bacterial patterns https://www.biorxiv.org/content/10.64898/2025.12.13.694038v1

Metabolomics reveals synergistic antimalarial drug pairing effects against Plasmodium falciparum in vitro https://www.biorxiv.org/content/10.64898/2025.12.13.694081v1

Perturb-seq identifies TCF7 as a central nexus linking MAPK- and Wnt-driven gene expression https://www.biorxiv.org/content/10.64898/2025.12.15.694273v1

Predicting and Controlling Collective Fate in Multicellular Systems https://www.biorxiv.org/content/10.64898/2025.12.11.693804v1

Cancer pathway connectivity resolved by drug perturbation and RNA sequencing https://www.biorxiv.org/content/10.64898/2025.12.11.692401v1

The cytosolic PRMT5-CDK4 complex impairs cell cycle kinase signaling https://www.biorxiv.org/content/10.64898/2025.12.11.693714v1

Multi-omics analysis reveals vitamin D metabolism, hyper-IgE genes, and epithelial barrier dysfunction in hazelnut allergy https://www.biorxiv.org/content/10.64898/2025.12.11.692994v1

DISCO-seq: 3D single-cell transcriptomics of intact biological systems https://www.biorxiv.org/content/10.64898/2025.12.10.693352v1

RhizoGrid: Illuminating Spatial Rhizosphere Dynamics https://www.biorxiv.org/content/10.64898/2025.12.10.693536v1

Evaluating the performance of photon- and electron-based fragmentation methods in Omnitrap-LCMS analysis of N-glycopeptides https://www.biorxiv.org/content/10.64898/2025.12.10.693381v1

Bifunctional transcriptional effector domains control gene expression pulses in an occupancy-dependent manner https://www.biorxiv.org/content/10.64898/2025.12.10.693551v1

Climate risk for Italian habitats https://www.biorxiv.org/content/10.64898/2025.12.11.693144v1

Single-cell heterogeneity in interferon induction potential is heritable and governed by variation in cell state https://www.biorxiv.org/content/10.64898/2025.12.09.693293v1

StereoMapper: Clarifying Metabolite Identity Through Stereochemically Aware Relationship Assignment https://www.biorxiv.org/content/10.64898/2025.12.09.693222v1

Time-dependent bistability leads to critical slowing down during floral transition in Arabidopsis https://www.biorxiv.org/content/10.64898/2025.12.09.692976v1

Image-based morphological profiling of autophagy phenotypes in Zika virus infected cells https://www.biorxiv.org/content/10.64898/2025.12.09.693313v1