Model Board
Each subheading shows the most recent computational models published in each journal or preprint server. As journals publish, this page is autonomously updated and clicking the links will send you to the article.
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- An extension of Modular Response Analysis for global perturbations and robust connectivity inference of gene regulatory networks.
- RISOP, a Reference-Assisted Approach for Enhanced Identification of Oxidized Phospholipids
- Multi-omic data fusion reveals the in vivo enzyme kinetics of Vibrio natriegens at the genome-scale
- Diversity, host-specificity, and environmental drivers of the coral reef eukaryome
- Human Genome-Scale Models of Metabolism and Gene Expression Reveal Resource Constraints of Cancer Cell Lines
- TabularQual: A spreadsheet-based format for annotating and curating logical models in SBML-qual
- Model-based inference of enzyme inhibitions from perturbation-induced metabolic dynamics
- A multimodal perturbation atlas defines the phenotypic resolution of cellular morphology.
- Development positions malignant cellular states but does notexplain their diversification
- Extracellular vesicles from Manila clam (Ruditapes philippinarum): tailored isolation from hemolymph and insights into water-derived vesicles
- Disentangling infectiousness and susceptibility by age group using transmission pair data: a study of SARS-CoV-2 household transmission
- MultiAge: A New Multidimensional Biomarker of Biological Age Derived from Comprehensive Phenotypic and Molecular Profiling
- Impact of Modifiable Risk Factors and APOE on Neuropsychiatric Symptoms in Alzheimers Disease
- Assessing the impact of absence of coordination in malaria intervention strategies: a modelling study
- Early life multidimensional disadvantage of South Australian children: a whole-population linked data study
- KESOZI Digital Twin: Physics-Informed Neural Network for Independent Estimation and Prediction of Childhood Diarrheal Disease Burden in Kenya, Somaliland, and Zimbabwe
- Arts and Cultural Engagement and Multidimensional Well-being in Later Life
- Insights from Wastewater Surveillance of SARS-CoV-2 in Skilled Nursing Facilities: Comparing Virus Concentration Methods for Wastewater and Correlating Wastewater Virus Concentrations with Clinical Infections, Georgia, USA, 2022
- A New Mixed Frequency Regression Model For Environmental Epidemiology
- Development of Longitudinal, Linked Maternal-Infant Cohorts using the Epic Cosmos Electronic Health Record Dataset
- ArchVelo: archetypal velocity modeling for single-cell multi-omic trajectories
- SpaDC enables sequence-based integrative analysis and regulatory inference of spatial chromatin accessibility data
- Explicit dynamic cross-strand interactions for DNA sequence language modelling
- Inference of spatial chromatin accessibility via integration of spatial transcriptomics and single-cell multi-omics data
- Flipping antimicrobial peptides in the exit tunnel of the bacterial ribosome
- Tuning beta cells to the right frequency
- How is agentic AI changing how we do science?
- The metabolome of an E. coli CRISPRi library identifies benefits of minimal metabolite levels and targets for engineering
- Recurrent neural chemical reaction networks that approximate arbitrary dynamics
- TarDis: Achieving robust and structured disentanglement of multiple covariates
- Mean field game model of the impact of reductions in support on faculty research activity
- Symmetry-breaking thermomagnetic dynamics of ferrofluid: Oscillation, spontaneous rotation, and flow bistability under laser irradiation
- What leads to administrative bloat? A dynamic model of administrative cost and waste
- Traveling waves in a continuum model of schooling swimmers
- Detecting changepoints in dynamical systems: Modeling time-varying transmission of seasonal influenza
- Managed-bee supplementation may drive parasite-mediated exclusion of wild bees
- A model of STAT1-p53 coordination: Regulating p21 and PUMA to program cell fate under stress
- The effect of mutualistic interactions on diversity patterns in island biogeography
- The scaling of swimming speed
- A theoretical model for the influence of age, race and ethnicity on retinal mitochondria dysfunction
- Threshold analysis for a diffusive SIS epidemic model with infection-age
- Anthropogenic noise reshapes community stability by disrupting parental care-mediated trophic feedbacks
- Dynamics in an almost periodic metapopulation with competition and habitat destruction: An exponential dichotomy based approach
- A general class of bounded diffusion processes with applications in the biosciences
- Reshaping transmission and recovery: How memory effects govern global dynamics thresholds in the SIR model
- StPedf: Cell trajectory inference of spatial transcriptomics via spatial proximity embedding and spatial density-adaptive fusion
- A multiscale, Bayesian inference approach to augment mechanistic models of cell signaling with machine-learning predictions of binding affinity
- Heuristic multi-site optimization for protein sequence design using Masked Protein Language Models
- Predictive modeling in biology and medicine: Digital twins and multi-scale modeling
- Cell differentiation can underpin the reproducibility of morphogenesis
- Deterministic and Stochastic Infection Dynamics in a Population Subject to Stress
- Integrating Mathematical Modeling and Oncology: An Improvised Collocation Approach for Prediction of Chemotherapy Response
- A Tutorial on Structural Identifiability of Epidemic Models Using StructuralIdentifiability.jl
- Sustainable Coexistence with Infectious Diseases: A Behavioral Feedback Model Driven by Resource Accessibility under Static-Dynamic Optimal Control
- Channel Transport: Gating, Geometry, and Heterogeneous Diffusion
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- A dialog between cell adhesion and topology at the core of morphogenesis
- Computational models of cellular bioenergetics indicate the role of Ca2+-regulated pyruvate dehydrogenase in metabolic remodeling
- Dynamics of cell fate patterning in discrete multicellular systems
- Primer: Drug discovery and patient-derived organoids
- Systems biology at the body scale: Toward adaptive digital twins in precision medicine
- Modelling the effect of antibody depletion for dose-response behavior of common immunostaining protocols
- Transient tumor-induced disruption of peristaltic flow: a magnetohydrodynamic modeling framework
- A framework for jointly modeling the natural history of ductal carcinoma in situ and invasive breast cancer
- Stochastic modelling and statistical inference for the time to extinction of a class of populations with sexual reproduction
- A hybrid framework for compartmental models enabling simulation-based inference