ReviewPLoS computational biology2011
A multi-cell, multi-scale model of vertebrate segmentation and somite formation.
Review 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 61 papers.
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
61 citing papers in PubMed.
- Multiscale Modeling of Embryonic Morphogenesis from Fertilization to Organogenesis.NPJ systems biology and applications · 2026Review
- The (un)likelihood of clock-driven lateral root priming; a modeling exploration.The Plant cell · 2026Article
- Start small: A model for tissue-wide planar cell polarity without morphogens.PLoS computational biology · 2026Article
- Evolvability in vertebrate segmentation.Seminars in cell & developmental biology · 2025Review
- Programming the elongation of mammalian cell aggregates with synthetic gene circuits.bioRxiv : the preprint server for biology · 2024Article
- Engineering a computable epiblast for in silico modeling of developmental toxicity.Reproductive toxicology (Elmsford, N.Y.) · 2024Article
- Design and mathematical analysis of activating transcriptional amplifiers that enable modular temporal control in synthetic juxtacrine circuits.Synthetic and systems biotechnology · 2023Article
- Generative models of morphogenesis in developmental biology.Seminars in cell & developmental biology · 2023Review
- Evolution of selfish multicellularity: collective organisation of individual spatio-temporal regulatory strategies.BMC ecology and evolution · 2023Article
- Hybrid cellular Potts and bead-spring modeling of cells in fibrous extracellular matrix.Biophysical journal · 2023Article
- Sequential changes in cellular properties accompanying amniote somite formation.Journal of anatomy · 2023Article
- libRoadRunner 2.0: a high performance SBML simulation and analysis library.Bioinformatics (Oxford, England) · 2023Article
- Parameterized Computational Framework for the Description and Design of Genetic Circuits of Morphogenesis Based on Contact-Dependent Signaling and Changes in Cell-Cell Adhesion.ACS synthetic biology · 2022Article
- A mechanical model of early somite segmentation.iScience · 2021Article
- A multiscale model via single-cell transcriptomics reveals robust patterning mechanisms during early mammalian embryo development.PLoS computational biology · 2021Article
- From local resynchronization to global pattern recovery in the zebrafish segmentation clock.eLife · 2021Article
- A Sight on Single-Cell Transcriptomics in Plants Through the Prism of Cell-Based Computational Modeling Approaches: Benefits and Challenges for Data Analysis.Frontiers in genetics · 2021Review
- The Evolutionary History of Ephs and Ephrins: Toward Multicellular Organisms.Molecular biology and evolution · 2020Article
- Synthetic development: building mammalian multicellular structures with artificial genetic programs.Current opinion in biotechnology · 2019Review
- Adapting a Plant Tissue Model to Animal Development: Introducing Cell Sliding into VirtualLeaf.Bulletin of mathematical biology · 2019Article
1 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
Somitogenesis, the formation of the body's primary segmental structure common to all vertebrate development, requires coordination between biological mechanisms at several scales. Explaining how these mechanisms interact across scales and how events are coordinated in space and time is necessary for a complete understanding of somitogenesis and its evolutionary flexibility. So far, mechanisms of somitogenesis have been studied independently. To test the consistency, integrability and combined explanatory power of current prevailing hypotheses, we built an integrated clock-and-wavefront model including submodels of the intracellular segmentation clock, intercellular segmentation-clock coupling via Delta/Notch signaling, an FGF8 determination front, delayed differentiation, clock-wavefront readout, and differential-cell-cell-adhesion-driven cell sorting. We identify inconsistencies between existing submodels and gaps in the current understanding of somitogenesis mechanisms, and propose novel submodels and extensions of existing submodels where necessary. For reasonable initial conditions, 2D simulations of our model robustly generate spatially and temporally regular somites, realistic dynamic morphologies and spontaneous emergence of anterior-traveling stripes of Lfng. We show that these traveling stripes are pseudo-waves rather than true propagating waves. Our model is flexible enough to generate interspecies-like variation in somite size in response to changes in the PSM growth rate and segmentation-clock period, and in the number and width of Lfng stripes in response to changes in the PSM growth rate, segmentation-clock period and PSM length.
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.