ArticlePLoS computational biology2011
MDCK cystogenesis driven by cell stabilization within computational analogues.
Article in PLoS computational biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
26 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Pooled it
- Individualized, discrete event, simulations provide insight into inter- and intra-subject variability of extended-release, drug products.Theoretical biology & medical modelling · 2012Trial
- Predicting organoid morphology through a phase field model: Insights into cell division and lumenal pressure.PLoS computational biology · 2025Article
- Novel imaging and biophysical approaches to study tissue hydraulics in mammalian folliculogenesis.Biophysical reviews · 2024Review
- Assessment of Tilapia Skin Collagen for Biomedical Research Applications in Comparison with Mammalian Collagen.Molecules (Basel, Switzerland) · 2024Article
- CartoCell, a high-content pipeline for 3D image analysis, unveils cell morphology patterns in epithelia.Cell reports methods · 2023Article
- Epithelial tissue confinement inhibits cell growth and leads to volume-reducing divisions.Developmental cell · 2023Article
- A hybrid physics-based and data-driven framework for cellular biological systems: Application to the morphogenesis of organoids.iScience · 2023Article
- A 3D multi-agent-based model for lumen morphogenesis: the role of the biophysical properties of the extracellular matrix.Engineering with computers · 2022Article
- Mistargeting of a truncated Na-K-2Cl cotransporter in epithelial cells.American journal of physiology. Cell physiology · 2018Article
- In silico drug absorption tract: An agent-based biomimetic model for human oral drug absorption.PloS one · 2018Article
- Towards personalized computational oncology: from spatial models of tumour spheroids, to organoids, to tissues.Journal of the Royal Society, Interface · 2018Review
- Correlation between E-cadherin interactions, survivin expression, and apoptosis in MDCK and ts-Src MDCK cell culture models.Laboratory investigation; a journal of technical methods and pathology · 2017Article
- Virtual-tissue computer simulations define the roles of cell adhesion and proliferation in the onset of kidney cystic disease.Molecular biology of the cell · 2016Article
- A cell-centered, agent-based framework that enables flexible environment granularities.Theoretical biology & medical modelling · 2016Article
- The APC tumor suppressor is required for epithelial cell polarization and three-dimensional morphogenesis.Biochimica et biophysica acta · 2015Article
- An agent-based modeling framework linking inflammation and cancer using evolutionary principles: description of a generative hierarchy for the hallmarks of cancer and developing a bridge between mechanism and epidemiological data.Mathematical biosciences · 2015Article
- Article
- Investigation of inflammation and tissue patterning in the gut using a Spatially Explicit General-purpose Model of Enteric Tissue (SEGMEnT).PLoS computational biology · 2014Article
- Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
Abstract
The study of epithelial morphogenesis is fundamental to increasing our understanding of organ function and disease. Great progress has been made through study of culture systems such as Madin-Darby canine kidney (MDCK) cells, but many aspects of even simple morphogenesis remain unclear. For example, are specific cell actions tightly coupled to the characteristics of the cell's environment or are they more often cell state dependent? How does the single lumen, single cell layer cyst consistently emerge from a variety of cell actions? To improve insight, we instantiated in silico analogues that used hypothesized cell behavior mechanisms to mimic MDCK cystogenesis. We tested them through in vitro experimentation and quantitative validation. We observed novel growth patterns, including a cell behavior shift that began around day five of growth. We created agent-oriented analogues that used the cellular Potts model along with an Iterative Refinement protocol. Following several refinements, we achieved a degree of validation for two separate mechanisms. Both survived falsification and achieved prespecified measures of similarity to cell culture properties. In silico components and mechanisms mapped to in vitro counterparts. In silico, the axis of cell division significantly affects lumen number without changing cell number or cyst size. Reducing the amount of in silico luminal cell death had limited effect on cystogenesis. Simulations provide an observable theory for cystogenesis based on hypothesized, cell-level operating principles.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.