Research graph
References from In silico modeling of directed differentiation of induced pluripotent stem cells to definitive endoderm. Local targets link to admitted publications; unresolved targets remain external evidence.
Vertebrate endoderm development and organ formation
10.1146/annurev.cellbio.042308.113344 · 2009 · External reference
Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors
10.1016/j.cell.2006.07.024 · 2006 · External reference
Generation of functional human pancreatic β cells in vitro
10.1016/j.cell.2014.09.040 · 2014 · External reference
Embryonic stem cell lines from human blastocysts: Somatic differentiation in vitro
10.1038/74447 · 2000 · External reference
Efficient derivation of purified lung and thyroid progenitors from embryonic stem cells
10.1016/j.stem.2012.01.019 · 2012 · External reference
Efficient differentiation of human embryonic stem cells to definitive endoderm
10.1038/nbt1163 · 2005 · External reference
Nodal signaling patterns the organizer
10.1242/dev.127.5.921 · 2000 · External reference
Highly efficient reprogramming to pluripotency and directed differentiation of human cells with synthetic modified mRNA
10.1016/j.stem.2010.08.012 · 2010 · External reference
Generation of anterior foregut endoderm from human embryonic and induced pluripotent stem cells
10.1038/nbt.1788 · 2011 · External reference
Digital twins for tissue culture techniques—Concepts, expectations, and state of the art
10.3390/pr9030447 · 2021 · External reference
The future is digital: In silico tissue engineering
10.1016/j.cobme.2018.04.001 · 2018 · External reference
A comprehensive mathematical model of stem cell proliferation which reproduces most of the published experimental results
1980 · External reference
Modeling of asymmetric cell division in hematopoietic stem cells–regulation of self-renewal is essential for efficient repopulation
10.1089/scd.2008.0143 · 2009 · External reference
Cell lineages and the logic of proliferative control
10.1371/journal.pbio.1000015 · 2009 · External reference
Mathematical modeling of leukemogenesis and cancer stem cell dynamics
10.1051/mmnp/20127199 · 2012 · External reference
Effect of cellular de-differentiation on the dynamics and evolution of tissue and tumor cells in mathematical models with feedback regulation
10.1016/j.jtbi.2018.03.036 · 2018 · External reference
Modeling the behavior of human induced pluripotent stem cells seeded on melt electrospun scaffolds
10.1186/s13036-017-0080-5 · 2017 · External reference
Calibration, Selection and identifiability analysis of a mathematical model of the in vitro erythropoiesis in normal and perturbed contexts
10.3233/isb-190471 · 2019 · External reference
Mathematical modelling of adult hippocampal neurogenesis: Effects of altered stem cell dynamics on cell counts and bromodeoxyuridine-labelled cells
10.1098/rsif.2014.0144 · 2014 · External reference
On structural and practical identifiability
10.1016/j.coisb.2021.03.005 · 2021 · External reference
In silico model development and optimization of in vitro lung cell population growth
10.1371/journal.pone.0300902 · 2024 · External reference
Why so many published sensitivity analyses are false: A systematic review of sensitivity analysis practices
10.1016/j.envsoft.2019.01.012 · 2019 · External reference
Mouse ES and iPS cells can form similar definitive endoderm despite differences in imprinted genes
10.1172/jci43853 · 2011 · External reference
Prospective isolation of NKX2-1-expressing human lung progenitors derived from pluripotent stem cells
10.1172/jci89950 · 2017 · External reference
Differentiation of human pluripotent stem cells into functional lung alveolar epithelial cells
10.1016/j.stem.2017.08.014 · 2017 · External reference
10.1201/b17203
10.1201/b17203 · External reference
A protocol for dynamic model calibration
10.1093/bib/bbab387 · 2022 · External reference
Implementing measurement error models with mechanistic mathematical models in a likelihood-based framework for estimation, identifiability analysis and prediction in the life sciences
10.1098/rsif.2023.0402 · 2024 · External reference
10.1007/978-1-4899-2873-3
10.1007/978-1-4899-2873-3 · External reference
Unresolved reference
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10.1007/s00285-025-02225-w
10.1007/s00285-025-02225-w · External reference
Parameter identifiability and model selection for sigmoid population growth models
10.1016/j.jtbi.2021.110998 · 2022 · External reference
Identifiability and observability analysis for experimental design in nonlinear dynamical models
10.1063/1.3528102 · 2010 · External reference
COMBOS2: An algorithm to the input–output equations of dynamic biosystems via Gaussian elimination
10.1080/16583655.2020.1776466 · 2020 · External reference
Differential elimination for dynamical models via projections with applications to structural identifiability
10.1137/22m1469067 · 2023 · External reference
10.1093/oso/9780198507659.001.0001
10.1093/oso/9780198507659.001.0001 · External reference
Profile-Wise Analysis: A profile likelihood-based workflow for identifiability analysis, estimation, and prediction with mechanistic mathematical models
10.1371/journal.pcbi.1011515 · 2023 · External reference
Differentialequations.jl – A performant and feature-rich ecosystem for solving differential equations in julia
10.5334/jors.151 · 2017 · External reference
Julia: A fresh approach to numerical computing
10.1137/141000671 · 2017 · External reference
10.1201/9780429399640
10.1201/9780429399640 · External reference
Derivation of self-renewing lung alveolar epithelial type II cells from human pluripotent stem cells
10.1038/s41596-019-0220-0 · 2019 · External reference
Large sample properties of simulations using latin hypercube sampling
1987 · External reference
Differential evolution – A simple and efficient heuristic for global optimization over continuous spaces
10.1023/a:1008202821328 · 1997 · External reference
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A simplex method for function minimization
10.1093/comjnl/7.4.308 · 1965 · External reference
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10.1093/biomet/37.3-4.409
10.1093/biomet/37.3-4.409 · External reference
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10.1007/978-1-0716-0191-4_11
10.1007/978-1-0716-0191-4_11 · External reference
Towards a validated musculoskeletal knee model to estimate tibiofemoral kinematics and ligament strains: Comparison of different anterolateral augmentation procedures combined with isolated ACL reconstructions
10.1186/s12938-023-01094-y · 2023 · External reference
Sensitivity analysis for non-linear mathematical models
1993 · External reference
GlobalSensitivity.jl: Performant and parallel global sensitivity analysis with julia
10.21105/joss.04561 · 2022 · External reference
Maximizing neotissue growth kinetics in a perfusion bioreactor: An in silico strategy using model reduction and bayesian optimization
10.1002/bit.26500 · 2018 · External reference
Juliastats/glm.jl: v1.
2023 · External reference
Cell density dependent plating efficiency affects outcome and interpretation of colony forming assays
10.1016/0167-8140(96)01767-7 · 1996 · External reference
challenges of cell counting in cell therapy products
10.1177/09636897241293628 · 2024 · External reference
Calcium sensitization of smooth muscle mediated by a rho-associated protein kinase in hypertension
10.1038/40187 · 1997 · External reference
Specificity and mechanism of action of some commonly used protein kinase inhibitors
10.1042/bj3510095 · 2000 · External reference
Pharmacological properties of y-27632, a specific inhibitor of rho-associated kinases
10.1016/s0026-895x(24)26508-1 · 2000 · External reference
three-dimensional cultured liver-on-a-chip with mature hepatocyte-like cells derived from human pluripotent stem cells
10.1007/s10544-019-0423-8 · 2019 · External reference
Generation of 3D lung organoids from human induced pluripotent stem cells for modeling of lung development and viral infection
10.1016/j.heliyon.2023.e19601 · 2023 · External reference
Post-passage rock inhibition induces cytoskeletal aberrations and apoptosis in Human embryonic stem cells
10.1016/j.scr.2019.101641 · 2019 · External reference
Bayesian multiobjective optimisation with mixed analytical and black-box functions: Application to tissue engineering
10.1109/tbme.2018.2855404 · 2019 · External reference
Small molecule screening in human induced pluripotent stem cell-derived terminal cell types
10.1074/jbc.r113.529156 · 2014 · External reference
Reference maps of human ES and iPS cell variation enable high-throughput characterization of pluripotent cell lines
10.1016/j.cell.2010.12.032 · 2011 · External reference
Single-cell RNA-seq reveals novel regulators of human embryonic stem cell differentiation to definitive endoderm
10.1186/s13059-016-1033-x · 2016 · External reference
Dynamic network biomarker factors orchestrate cell-fate determination at tipping points during hESC differentiation
2022 · External reference
Modelling stem cell ageing: A multi-compartment continuum approach
10.1098/rsos.191848 · 2020 · External reference
Real time visualization of cancer cell death, survival and proliferation using fluorochrome-transfected cells in an IncuCyte® imaging system
10.14440/jbm.2020.323 · 2020 · External reference
Unresolved reference
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10.1198/1085711032697
10.1198/1085711032697 · External reference
Practical identifiability in the frame of nonlinear mixed effects models: The example of the in vitro erythropoiesis
10.1186/s12859-021-04373-4 · 2021 · External reference
Modeling cell population dynamics
10.3233/isb-180470 · 2019 · External reference
Efficient generation of lung and airway epithelial cells from human pluripotent stem cells
10.1038/nbt.2754 · 2014 · External reference
Nodal inhibits differentiation of human embryonic stem cells along the neuroectodermal default pathway
10.1016/j.ydbio.2004.08.031 · 2004 · External reference
The role of genetic factors in endocrine tissues development and its regulation in vivo and in vitro
10.1134/s102279542103008x · 2021 · External reference
Differentiation of human pluripotent stem cells into functional airway basal stem cells
10.1016/j.xpro.2021.100683 · 2021 · External reference
Generation of mesenchyme free intestinal organoids from human induced pluripotent stem cells
10.1038/s41467-019-13916-6 · 2020 · External reference
10.1007/978-1-4939-9477-9_4
10.1007/978-1-4939-9477-9_4 · External reference
Mechanistic and data-driven models of cell signaling: Tools for fundamental discovery and rational design of therapy
10.1016/j.coisb.2021.05.010 · 2021 · External reference
Mathematical models of pluripotent stem cells: At the dawn of predictive regenerative medicine
10.1007/978-1-4939-3283-2_15 · 2016 · External reference
Optimal quantification of contact inhibition in cell populations
10.1016/j.bpj.2017.09.016 · 2017 · External reference
Drug-dependent growth curve reshaping reveals mechanisms of antifungal resistance in Saccharomyces cerevisiae
10.1038/s42003-022-03228-9 · 2022 · External reference
Synthetic genetic circuits to uncover the OCT4 trajectories of successful reprogramming of human fibroblasts
10.1126/sciadv.adg8495 · 2023 · External reference
A blueprint for a synthetic genetic feedback controller to reprogram cell fate
2017 · External reference
Cellular decision making and biological noise: From microbes to mammals
10.1016/j.cell.2011.01.030 · 2011 · External reference
