{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,7]],"date-time":"2026-07-07T09:21:50Z","timestamp":1783416110467,"version":"3.54.6"},"reference-count":75,"publisher":"Springer Science and Business Media LLC","issue":"8","license":[{"start":{"date-parts":[[2019,3,29]],"date-time":"2019-03-29T00:00:00Z","timestamp":1553817600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"},{"start":{"date-parts":[[2019,3,29]],"date-time":"2019-03-29T00:00:00Z","timestamp":1553817600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"}],"funder":[{"name":"NWO Vidi","award":["864.10.009"],"award-info":[{"award-number":["864.10.009"]}]},{"name":"NCSB"},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"crossref","award":["R01 HD044750"],"award-info":[{"award-number":["R01 HD044750"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["R21 ES019259"],"award-info":[{"award-number":["R21 ES019259"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"name":"National Science Foundation","award":["NSF CMMI-1100515"],"award-info":[{"award-number":["NSF CMMI-1100515"]}]},{"name":"SurfSara","award":["Lisa"],"award-info":[{"award-number":["Lisa"]}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Bull Math Biol"],"published-print":{"date-parts":[[2019,8]]},"DOI":"10.1007\/s11538-019-00599-9","type":"journal-article","created":{"date-parts":[[2019,3,29]],"date-time":"2019-03-29T16:03:37Z","timestamp":1553875417000},"page":"3322-3341","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":12,"title":["Adapting a Plant Tissue Model to Animal Development: Introducing Cell Sliding into VirtualLeaf"],"prefix":"10.1007","volume":"81","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-3417-6955","authenticated-orcid":false,"given":"Henri B.","family":"Wolff","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2956-0437","authenticated-orcid":false,"given":"Lance A.","family":"Davidson","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6152-687X","authenticated-orcid":false,"given":"Roeland M. H.","family":"Merks","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2019,3,29]]},"reference":[{"key":"599_CR1","doi-asserted-by":"crossref","unstructured":"Anderson ARA, Chaplain MAJ, Rejniak KA (2007) Single-cell-based models in biology and medicine. In: Mathematics and biosciences in interaction. Birkha\u00fcser, Berlin","DOI":"10.1007\/978-3-7643-8123-3"},{"issue":"1","key":"599_CR2","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/0022-5193(73)90186-0","volume":"41","author":"PL Antonelli","year":"1973","unstructured":"Antonelli PL, Rogers TD, Willard MA (1973) Geometry and the exchange principle in cell aggregation kinetics. J Theor Biol 41(1):1\u201321. https:\/\/doi.org\/10.1016\/0022-5193(73)90186-0","journal-title":"J Theor Biol"},{"key":"599_CR3","doi-asserted-by":"publisher","first-page":"613","DOI":"10.1038\/s41567-018-0089-9","volume":"14","author":"L Atia","year":"2018","unstructured":"Atia L, Bi D, Sharma Y, Mitchel JA, Gweon B, Koehler SA, DeCamp SJ, Lan B, Kim JH, Hirsch R, Pegoraro AF, Lee KH, Starr JR, Weitz DA, Martin AC, Park JA, Butler JP, Fredberg JJ (2018) Geometric constraints during epithelial jamming. Nat Phys 14:613\u2013620. https:\/\/doi.org\/10.1038\/s41567-018-0089-9","journal-title":"Nat Phys"},{"key":"599_CR4","doi-asserted-by":"publisher","first-page":"151","DOI":"10.1007\/978-3-7643-8123-3_7","volume-title":"Single cell-based models in biology and medicine","author":"A Balter","year":"2007","unstructured":"Balter A, Merks RMH, Pop\u0142awski NJ, Swat M, Glazier JA (2007) The Glazier-Graner-Hogeweg model: extensions, future directions, and opportunities for further study. In: Anderson ARA, Rejniak KA (eds) Single cell-based models in biology and medicine. Birkha\u00fcser, Basel, pp 151\u2013167"},{"issue":"6","key":"599_CR5","doi-asserted-by":"publisher","first-page":"e1005569","DOI":"10.1371\/journal.pcbi.1005569","volume":"13","author":"DL Barton","year":"2017","unstructured":"Barton DL, Henkes S, Weijer CJ, Sknepnek R (2017) Active vertex model for cell-resolution description of epithelial tissue mechanics. PLoS Comput Biol 13(6):e1005569. https:\/\/doi.org\/10.1371\/journal.pcbi.1005569","journal-title":"PLoS Comput Biol"},{"issue":"22","key":"599_CR6","doi-asserted-by":"publisher","first-page":"3673","DOI":"10.1091\/mbc.E16-01-0059","volume":"27","author":"JM Belmonte","year":"2016","unstructured":"Belmonte JM, Clendenon SG, Oliveira GM, Swat MH, Greene EV, Jeyaraman S, Glazier JA, Bacallao RL (2016) Virtual-tissue computer simulations define the roles of cell adhesion and proliferation in the onset of kidney cystic disease. Mol Biol Cell 27(22):3673\u20133685. https:\/\/doi.org\/10.1091\/mbc.E16-01-0059","journal-title":"Mol Biol Cell"},{"issue":"12","key":"599_CR7","doi-asserted-by":"publisher","first-page":"1074","DOI":"10.1080\/10586458.1992.10504253","volume":"11","author":"D Bi","year":"2015","unstructured":"Bi D, Lopez JH, Schwarz JM, Manning ML (2015) A density-independent rigidity transition inbiological tissues. Nat Phys 11(12):1074\u20131079. https:\/\/doi.org\/10.1080\/10586458.1992.10504253","journal-title":"Nat Phys"},{"key":"599_CR8","doi-asserted-by":"publisher","DOI":"10.1103\/PhysRevX.6.021011","author":"D Bi","year":"2016","unstructured":"Bi D, Yang X, Marchetti MC, Manning ML (2016) Motility-Driven glass and jamming transitions in biological tissues. Phys Rev X. https:\/\/doi.org\/10.1103\/PhysRevX.6.021011","journal-title":"Phys Rev X"},{"issue":"92","key":"599_CR9","doi-asserted-by":"publisher","first-page":"20131049","DOI":"10.1038\/ncb1705","volume":"11","author":"SEM Boas","year":"2014","unstructured":"Boas SEM, Merks RMH (2014) Synergy of cell-cell repulsion and vacuolation in a computational model of lumen formation. J R Soc Interface 11(92):20131049\u201320131049. https:\/\/doi.org\/10.1038\/ncb1705","journal-title":"J R Soc Interface"},{"issue":"1","key":"599_CR10","doi-asserted-by":"publisher","first-page":"85","DOI":"10.1186\/s12918-015-0222-7","volume":"9","author":"SEM Boas","year":"2015","unstructured":"Boas SEM, Navarro JMI, Merks RMH, Blom JG (2015) A global sensitivity analysis approach for morphogenesis models. BMC Syst Biol 9(1):85. https:\/\/doi.org\/10.1186\/s12918-015-0222-7","journal-title":"BMC Syst Biol"},{"issue":"2","key":"599_CR11","doi-asserted-by":"publisher","first-page":"188","DOI":"10.1103\/PhysRevLett.76.3032","volume":"124","author":"GW Brodland","year":"2002","unstructured":"Brodland GW (2002) The differential interfacial tension hypothesis (DITH): a comprehensive theory for the self-rearrangement of embryonic cells and tissues. J Biomech Eng Trans ASME 124(2):188. https:\/\/doi.org\/10.1103\/PhysRevLett.76.3032","journal-title":"J Biomech Eng Trans ASME"},{"issue":"6","key":"599_CR12","doi-asserted-by":"publisher","first-page":"e99116","DOI":"10.1371\/journal.pone.0099116","volume":"9","author":"GW Brodland","year":"2014","unstructured":"Brodland GW, Veldhuis JH, Kim S, Perrone M, Mashburn D, Hutson MS (2014) CellFIT: a cellular force-inference toolkit using curvilinear cell boundaries. PLoS One 9(6):e99116. https:\/\/doi.org\/10.1371\/journal.pone.0099116","journal-title":"PLoS One"},{"issue":"7224","key":"599_CR13","doi-asserted-by":"publisher","first-page":"957","DOI":"10.1038\/nature07441","volume":"456","author":"C Carmona-Fontaine","year":"2008","unstructured":"Carmona-Fontaine C, Matthews HK, Kuriyama S, Moreno M, Dunn GA, Parsons M, Stern CD, Mayor R (2008) Contact inhibition of locomotion in vivo controls neural crest directional migration. Nature 456(7224):957\u2013961. https:\/\/doi.org\/10.1038\/nature07441","journal-title":"Nature"},{"issue":"23","key":"599_CR14","doi-asserted-by":"publisher","first-page":"4386","DOI":"10.1242\/dev.157073","volume":"144","author":"R Carter","year":"2017","unstructured":"Carter R, S\u00e1nchez-Corrales YE, Hartley M, Grieneisen VA, Mar\u00e9e AFM (2017) Pavement cells and the topology puzzle. Development (Cambridge, England) 144(23):4386\u20134397. https:\/\/doi.org\/10.1242\/dev.157073","journal-title":"Development (Cambridge, England)"},{"key":"599_CR15","doi-asserted-by":"publisher","first-page":"686","DOI":"10.3389\/fpls.2017.00686","volume":"8","author":"D De Vos","year":"2017","unstructured":"De Vos D, Dzhurakhalov A, Stijven S, Klosiewicz P, Beemster GTS, Broeckhove J (2017) Virtual plant tissue: building blocks for next-generation plant growth simulation. Front Plant Sci 8:686. https:\/\/doi.org\/10.3389\/fpls.2017.00686","journal-title":"Front Plant Sci"},{"issue":"8","key":"599_CR16","doi-asserted-by":"publisher","first-page":"1255","DOI":"10.1093\/aob\/mcm235","volume":"101","author":"L Dupuy","year":"2008","unstructured":"Dupuy L, Mackenzie J, Rudge T, Haseloff J (2008) A system for modelling cell-cell interactions during plant morphogenesis. Ann Bot 101(8):1255\u20131265. https:\/\/doi.org\/10.1093\/aob\/mcm235","journal-title":"Ann Bot"},{"issue":"24","key":"599_CR17","doi-asserted-by":"publisher","first-page":"2095","DOI":"10.1016\/j.cub.2007.11.049","volume":"17","author":"R Farhadifar","year":"2007","unstructured":"Farhadifar R, R\u00f6per JC, Aigouy B, Eaton S, J\u00fclicher F (2007) The influence of cell mechanics, cell-cell interactions, and proliferation on epithelial packing. Curr Biol 17(24):2095\u20132104. https:\/\/doi.org\/10.1016\/j.cub.2007.11.049","journal-title":"Curr Biol"},{"issue":"1","key":"599_CR18","doi-asserted-by":"publisher","first-page":"57","DOI":"10.1016\/j.ydbio.2014.11.011","volume":"398","author":"R Feroze","year":"2015","unstructured":"Feroze R, Shawky JH, von Dassow M, Davidson LA (2015) Mechanics of blastopore closure during amphibian gastrulation. Dev Biol 398(1):57\u201367. https:\/\/doi.org\/10.1016\/j.ydbio.2014.11.011","journal-title":"Dev Biol"},{"issue":"1720","key":"599_CR19","doi-asserted-by":"publisher","first-page":"20150519","DOI":"10.1098\/rstb.2015.0519","volume":"372","author":"AG Fletcher","year":"2017","unstructured":"Fletcher AG, Cooper F, Baker RE (2017) Mechanocellular models of epithelial morphogenesis. Philos Trans R Soc B Biol Sci 372(1720):20150519. https:\/\/doi.org\/10.1098\/rstb.2015.0519","journal-title":"Philos Trans R Soc B Biol Sci"},{"issue":"5","key":"599_CR20","doi-asserted-by":"publisher","first-page":"687","DOI":"10.1016\/j.cell.2004.12.026","volume":"120","author":"Y Fu","year":"2005","unstructured":"Fu Y, Gu Y, Zheng Z, Wasteneys G, Yang Z (2005) Arabidopsis interdigitating cell growth requires two antagonistic pathways with opposing action on cell morphogenesis. Cell 120(5):687\u2013700. https:\/\/doi.org\/10.1016\/j.cell.2004.12.026","journal-title":"Cell"},{"issue":"2","key":"599_CR21","doi-asserted-by":"publisher","first-page":"e1005991","DOI":"10.1371\/journal.pcbi.1005991","volume":"14","author":"A Ghaffarizadeh","year":"2018","unstructured":"Ghaffarizadeh A, Heiland R, Friedman SH, Mumenthaler SM, Macklin P (2018) PhysiCell: an open source physics-based cell simulator for 3-D multicellular systems. PLoS Comput Biol 14(2):e1005991. https:\/\/doi.org\/10.1371\/journal.pcbi.1005991","journal-title":"PLoS Comput Biol"},{"issue":"7106","key":"599_CR22","doi-asserted-by":"publisher","first-page":"1038","DOI":"10.1038\/nature05014","volume":"442","author":"MC Gibson","year":"2006","unstructured":"Gibson MC, Patel AB, Nagpal R, Perrimon N (2006) The emergence of geometric order in proliferating metazoan epithelia. Nature 442(7106):1038\u20131041. https:\/\/doi.org\/10.1038\/nature05014","journal-title":"Nature"},{"issue":"3","key":"599_CR23","doi-asserted-by":"publisher","first-page":"2128","DOI":"10.1103\/PhysRevE.47.2128","volume":"47","author":"JA Glazier","year":"1993","unstructured":"Glazier JA, Graner F (1993) Simulation of the differential adhesion driven rearrangement of biological cells. Phys Rev E 47(3):2128\u20132154","journal-title":"Phys Rev E"},{"issue":"13","key":"599_CR24","doi-asserted-by":"publisher","first-page":"2013","DOI":"10.1103\/PhysRevLett.69.2013","volume":"69","author":"F Graner","year":"1992","unstructured":"Graner F, Glazier JA (1992) Simulation of biological cell sorting using a two-dimensional extended Potts model. Phys Rev Lett 69(13):2013\u20132016","journal-title":"Phys Rev Lett"},{"key":"599_CR25","doi-asserted-by":"publisher","first-page":"477","DOI":"10.1006\/jtbi.1993.1168","volume":"164","author":"F Graner","year":"1993","unstructured":"Graner F, Sawada Y (1993) Can surface adhesion drive cell rearrangement? J Theor Biol 164:477\u2013506","journal-title":"J Theor Biol"},{"issue":"2","key":"599_CR26","doi-asserted-by":"publisher","first-page":"267","DOI":"10.1016\/0022-5193(76)90019-9","volume":"61","author":"AK Harris","year":"1976","unstructured":"Harris AK (1976) Is cell sorting caused by differences in the work of intercellular adhesion? A critique of the Steinberg hypothesis. J Theor Biol 61(2):267\u2013285. https:\/\/doi.org\/10.1016\/0022-5193(76)90019-9","journal-title":"J Theor Biol"},{"issue":"10","key":"599_CR27","doi-asserted-by":"publisher","first-page":"e1002155","DOI":"10.1371\/journal.pcbi.1002155","volume":"7","author":"SD Hester","year":"2011","unstructured":"Hester SD, Belmonte JM, Gens JS, Clendenon SG, Glazier JA (2011) A multi-cell, multi-scale model of vertebrate segmentation and somite formation. PLoS Comput Biol 7(10):e1002155","journal-title":"PLoS Comput Biol"},{"issue":"1\u20133","key":"599_CR28","doi-asserted-by":"publisher","first-page":"16","DOI":"10.1111\/j.1432-0436.1984.tb01332.x","volume":"25","author":"H Honda","year":"1983","unstructured":"Honda H, Dan-Sohkawa M, Watanabe K (1983) Geometrical analysis of cells becoming organized into a tensile sheet, the blastular wall, in the starfish. Differentiation 25(1\u20133):16\u201322. https:\/\/doi.org\/10.1111\/j.1432-0436.1984.tb01332.x","journal-title":"Differentiation"},{"issue":"14","key":"599_CR29","doi-asserted-by":"publisher","first-page":"4","DOI":"10.1103\/PhysRevLett.101.148105","volume":"101","author":"MS Hutson","year":"2008","unstructured":"Hutson MS, Brodland GW, Yang J, Viens D (2008) Cell sorting in three dimensions: topology, fluctuations, and fluidlike instabilities. Phys Rev Lett 101(14):4","journal-title":"Phys Rev Lett"},{"issue":"5\u20131","key":"599_CR30","doi-asserted-by":"publisher","first-page":"052711","DOI":"10.1103\/PhysRevE.90.052711","volume":"90","author":"Y Ishimoto","year":"2014","unstructured":"Ishimoto Y, Morishita Y (2014) Bubbly vertex dynamics: a dynamical and geometrical model for epithelial tissues with curved cell shapes. Phys Rev E 90(5\u20131):052711. https:\/\/doi.org\/10.1103\/PhysRevE.90.052711","journal-title":"Phys Rev E"},{"issue":"3","key":"599_CR31","doi-asserted-by":"publisher","first-page":"399","DOI":"10.1016\/0022-5193(70)90092-5","volume":"26","author":"EF Keller","year":"1970","unstructured":"Keller EF, Segel LA (1970) Initiation of slime mold aggregation viewed as an instability. J Theor Biol 26(3):399\u2013415","journal-title":"J Theor Biol"},{"issue":"2","key":"599_CR32","doi-asserted-by":"publisher","first-page":"225","DOI":"10.1016\/0022-5193(71)90050-6","volume":"30","author":"EF Keller","year":"1971","unstructured":"Keller EF, Segel LA (1971) Model for chemotaxis. J Theor Biol 30(2):225\u2013234. https:\/\/doi.org\/10.1016\/0022-5193(71)90050-6","journal-title":"J Theor Biol"},{"issue":"1","key":"599_CR33","doi-asserted-by":"publisher","first-page":"015024","DOI":"10.1088\/1367-2630\/16\/1\/015024","volume":"16","author":"S Kim","year":"2014","unstructured":"Kim S, Cai M, Hilgenfeldt S (2014) Lewis\u2019 law revisited: the role of anisotropy in size-topology correlations. New J Phys 16(1):015024. https:\/\/doi.org\/10.1088\/1367-2630\/16\/1\/015024","journal-title":"New J Phys"},{"issue":"4","key":"599_CR34","doi-asserted-by":"publisher","first-page":"429","DOI":"10.1038\/ncb1705","volume":"10","author":"MM Krieg","year":"2008","unstructured":"Krieg MM, Arboleda-Estudillo YY, Puech PHP, K\u00e4fer JJ, Graner FF, M\u00fcller DJD, Heisenberg CPC (2008) Tensile forces govern germ-layer organization in zebrafish. Nat Cell Biol 10(4):429\u2013436","journal-title":"Nat Cell Biol"},{"issue":"1","key":"599_CR35","doi-asserted-by":"publisher","first-page":"7887","DOI":"10.1038\/s41598-017-07653-3","volume":"7","author":"N Kudryashova","year":"2017","unstructured":"Kudryashova N, Tsvelaya V, Agladze K, Panfilov A (2017) Virtual cardiac monolayers for electrical wave propagation. Sci Rep 7(1):7887. https:\/\/doi.org\/10.1038\/s41598-017-07653-3","journal-title":"Sci Rep"},{"issue":"2","key":"599_CR36","doi-asserted-by":"publisher","first-page":"245","DOI":"10.1016\/j.cell.2007.01.004","volume":"128","author":"AD Lander","year":"2007","unstructured":"Lander AD (2007) Morpheus unbound: reimagining the morphogen gradient. Cell 128(2):245\u2013256. https:\/\/doi.org\/10.1016\/j.cell.2007.01.004","journal-title":"Cell"},{"issue":"5","key":"599_CR37","doi-asserted-by":"publisher","first-page":"331","DOI":"10.1002\/ar.1090330502","volume":"33","author":"FT Lewis","year":"1926","unstructured":"Lewis FT (1926) The effect of cell division on the shape and size of hexagonal cells. Anat Rec 33(5):331\u2013355. https:\/\/doi.org\/10.1002\/ar.1090330502","journal-title":"Anat Rec"},{"issue":"4","key":"599_CR38","doi-asserted-by":"publisher","first-page":"401","DOI":"10.1007\/s40571-015-0082-3","volume":"2","author":"P Liedekerke","year":"2015","unstructured":"Liedekerke P, Palm MM, Jagiella N, Drasdo D (2015) Simulating tissue mechanics with agent-based models: concepts, perspectives and some novel results. Comput Part Mech 2(4):401\u2013444. https:\/\/doi.org\/10.1007\/s40571-015-0082-3","journal-title":"Comput Part Mech"},{"issue":"1","key":"599_CR39","doi-asserted-by":"publisher","first-page":"2038","DOI":"10.1186\/s13628-015-0022-x","volume":"8","author":"R Magno","year":"2015","unstructured":"Magno R, Grieneisen VA, Mar\u00e9e AF (2015) The biophysical nature of cells: potential cell behaviours revealed by analytical and computational studies of cell surface mechanics. BMC Biophys 8(1):2038. https:\/\/doi.org\/10.1186\/s13628-015-0022-x","journal-title":"BMC Biophys"},{"issue":"2","key":"599_CR40","doi-asserted-by":"publisher","first-page":"327","DOI":"10.1006\/bulm.2001.0277","volume":"64","author":"A Maree","year":"2002","unstructured":"Maree A, Hogeweg P (2002) Modelling dictyostelium discoideum morphogenesis: the culmination. Bull Math Biol 64(2):327\u2013353. https:\/\/doi.org\/10.1006\/bulm.2001.0277","journal-title":"Bull Math Biol"},{"key":"599_CR41","doi-asserted-by":"publisher","first-page":"161","DOI":"10.1016\/j.semcdb.2016.07.029","volume":"67","author":"M Merkel","year":"2017","unstructured":"Merkel M, Manning ML (2017) Using cell deformation and motion to predict forces and collective behavior in morphogenesis. Semin Cell Dev Biol 67:161\u2013169. https:\/\/doi.org\/10.1016\/j.semcdb.2016.07.029","journal-title":"Semin Cell Dev Biol"},{"key":"599_CR42","doi-asserted-by":"publisher","first-page":"195","DOI":"10.1007\/978-3-540-70529-1_70","volume-title":"Encyclopedia of applied and computational mathematics","author":"R Merks","year":"2015","unstructured":"Merks R (2015) Cell-based modeling. In: Engquist B (ed) Encyclopedia of applied and computational mathematics. Springer, Berlin, pp 195\u2013201. https:\/\/doi.org\/10.1007\/978-3-540-70529-1_70"},{"issue":"1","key":"599_CR43","doi-asserted-by":"publisher","first-page":"44","DOI":"10.1016\/j.ydbio.2005.10.003","volume":"289","author":"RMH Merks","year":"2006","unstructured":"Merks RMH, Brodsky SV, Goligorksy MS, Newman SA, Glazier JA (2006) Cell elongation is key to in silico replication of in vitro vasculogenesis and subsequent remodeling. Dev Biol 289(1):44\u201354. https:\/\/doi.org\/10.1016\/j.ydbio.2005.10.003","journal-title":"Dev Biol"},{"issue":"1","key":"599_CR44","doi-asserted-by":"publisher","first-page":"113","DOI":"10.1016\/j.physa.2004.12.028","volume":"352","author":"RMH Merks","year":"2005","unstructured":"Merks RMH, Glazier JA (2005) A cell-centered approach to developmental biology. Physica A 352(1):113\u2013130","journal-title":"Physica A"},{"issue":"2","key":"599_CR45","doi-asserted-by":"publisher","first-page":"656","DOI":"10.1104\/pp.110.167619","volume":"155","author":"RMH Merks","year":"2011","unstructured":"Merks RMH, Guravage M, Inz\u00e9 D, Beemster GTS (2011) VirtualLeaf: an open-source framework for cell-based modeling of plant tissue growth and development. Plant Phys 155(2):656\u2013666. https:\/\/doi.org\/10.1104\/pp.110.167619","journal-title":"Plant Phys"},{"issue":"2","key":"599_CR46","doi-asserted-by":"publisher","first-page":"656","DOI":"10.1104\/pp.110.167619","volume":"155","author":"RMH Merks","year":"2011","unstructured":"Merks RMH, Guravage M, Inze D, Beemster GTS (2011) VirtualLeaf: an open-source framework for cell-based modeling of plant tissue growth and development. Plant Physiol 155(2):656\u2013666","journal-title":"Plant Physiol"},{"key":"599_CR47","doi-asserted-by":"publisher","first-page":"333","DOI":"10.1007\/978-1-62703-221-6_23","volume-title":"Plant organogenesis: methods and protocols. Methods in molecular biology","author":"RMH Merks","year":"2012","unstructured":"Merks RMH, Guravage MA (2012) Building simulation models of developing plant organs using VirtualLeaf. In: De Smet I (ed) Plant organogenesis: methods and protocols. Methods in molecular biology. Springer, New York, pp 333\u2013352. https:\/\/doi.org\/10.1007\/978-1-62703-221-6_23"},{"issue":"3","key":"599_CR48","doi-asserted-by":"publisher","first-page":"613","DOI":"10.3934\/mbe.2005.2.613","volume":"2","author":"T Newman","year":"2005","unstructured":"Newman T (2005) Modeling multicellular systems using subcellular elements. Math Biosci Eng 2(3):613\u2013624","journal-title":"Math Biosci Eng"},{"issue":"2","key":"599_CR49","doi-asserted-by":"publisher","first-page":"446","DOI":"10.1016\/0012-1606(81)90276-1","volume":"85","author":"GM Odell","year":"1981","unstructured":"Odell GM, Oster G, Alberch P, Burnside B (1981) The mechanical basis of morphogenesis. I. Epithelial folding and invagination. Dev Biol 85(2):446\u2013462","journal-title":"Dev Biol"},{"issue":"2","key":"599_CR50","doi-asserted-by":"publisher","first-page":"e1005387","DOI":"10.1371\/journal.pcbi.1005387.s004","volume":"13","author":"JM Osborne","year":"2017","unstructured":"Osborne JM, Fletcher AG, Pitt-Francis JM, Maini PK, Gavaghan DJ (2017) Comparing individual-based approaches to modelling the self-organization of multicellular tissues. PLoS Comput Biol 13(2):e1005387. https:\/\/doi.org\/10.1371\/journal.pcbi.1005387.s004","journal-title":"PLoS Comput Biol"},{"issue":"6","key":"599_CR51","doi-asserted-by":"publisher","first-page":"1132","DOI":"10.1007\/s11538-015-0080-x","volume":"77","author":"KJ Painter","year":"2015","unstructured":"Painter KJ, Bloomfield JM, Sherratt JA, Gerisch A (2015) A nonlocal model for contact attraction and repulsion in heterogeneous cell populations. Bull Math Biol 77(6):1132\u20131165. https:\/\/doi.org\/10.1007\/s11538-015-0080-x","journal-title":"Bull Math Biol"},{"issue":"4","key":"599_CR52","doi-asserted-by":"publisher","first-page":"371","DOI":"10.1007\/s40571-015-0064-5","volume":"2","author":"D Palachanis","year":"2015","unstructured":"Palachanis D, Szab\u00f3 A, Merks RMH (2015) Particle-based simulation of ellipse-shaped particle aggregation as a model for vascular network formation. Comput Part Mech 2(4):371\u2013379. https:\/\/doi.org\/10.1007\/s40571-015-0064-5","journal-title":"Comput Part Mech"},{"issue":"11","key":"599_CR53","doi-asserted-by":"publisher","first-page":"e0159478","DOI":"10.1371\/journal.pone.0159478.s016","volume":"11","author":"MM Palm","year":"2016","unstructured":"Palm MM, Dallinga MG, van Dijk E, Klaassen I, Schlingemann RO, Merks RMH (2016) Computational screening of tip and stalk cell behavior proposes a role for apelin signaling in sprout progression. PLoS One 11(11):e0159478. https:\/\/doi.org\/10.1371\/journal.pone.0159478.s016","journal-title":"PLoS One"},{"issue":"2","key":"599_CR54","doi-asserted-by":"publisher","first-page":"405","DOI":"10.1007\/s10237-015-0697-6","volume":"15","author":"MC Perrone","year":"2016","unstructured":"Perrone MC, Veldhuis JH, Brodland GW (2016) Non-straight cell edges are important to invasion and engulfment as demonstrated by cell mechanics model. Biomech Model Mechanobiol 15(2):405\u2013418. https:\/\/doi.org\/10.1007\/s10237-015-0697-6","journal-title":"Biomech Model Mechanobiol"},{"key":"599_CR55","doi-asserted-by":"publisher","first-page":"78","DOI":"10.1007\/11553090_9","volume":"3630","author":"T Rudge","year":"2005","unstructured":"Rudge T, Haseloff J (2005) A computational model of cellular morphogenesis in plants. Lect Notes Comput Sci 3630:78\u201387","journal-title":"Lect Notes Comput Sci"},{"issue":"7","key":"599_CR56","doi-asserted-by":"publisher","first-page":"e11750","DOI":"10.1371\/journal.pone.0011750.t002","volume":"5","author":"P Sahlin","year":"2010","unstructured":"Sahlin P, J\u00f6nsson H (2010) A modeling study on how cell division affects properties of epithelial tissues under isotropic growth. PLoS One 5(7):e11750. https:\/\/doi.org\/10.1371\/journal.pone.0011750.t002","journal-title":"PLoS One"},{"issue":"10","key":"599_CR57","doi-asserted-by":"publisher","first-page":"536","DOI":"10.1016\/j.tcb.2012.07.001","volume":"22","author":"G Salbreux","year":"2012","unstructured":"Salbreux G, Charras G, Paluch E (2012) Actin cortex mechanics and cellular morphogenesis. Trends Cell Biol 22(10):536\u2013545. https:\/\/doi.org\/10.1016\/j.tcb.2012.07.001","journal-title":"Trends Cell Biol"},{"key":"599_CR58","doi-asserted-by":"publisher","first-page":"e32794","DOI":"10.7554\/eLife.32794","volume":"7","author":"A Sapala","year":"2018","unstructured":"Sapala A, Runions A, Routier-Kierzkowska AL, Das Gupta M, Hong L, Hofhuis H, Verger S, Mosca G, Li CB, Hay A, Hamant O, Roeder AH, Tsiantis M, Prusinkiewicz P, Smith RS (2018) Why plants make puzzle cells, and how their shape emerges. eLife 7:e32794. https:\/\/doi.org\/10.7554\/eLife.32794","journal-title":"eLife"},{"key":"599_CR59","doi-asserted-by":"publisher","first-page":"94","DOI":"10.1016\/j.compbiomed.2016.06.027","volume":"76","author":"M Scianna","year":"2016","unstructured":"Scianna M, Preziosi L (2016) A node-based version of the cellular Potts model. Comput Biol Med 76:94\u2013112. https:\/\/doi.org\/10.1016\/j.compbiomed.2016.06.027","journal-title":"Comput Biol Med"},{"issue":"9","key":"599_CR60","doi-asserted-by":"publisher","first-page":"e0162428","DOI":"10.1371\/journal.pone.0162428.s005","volume":"11","author":"JP Sluka","year":"2016","unstructured":"Sluka JP, Fu X, Maaciej S, Belmonte JM, Cosmanescu A, Clendenon SG, Wambaugh JF, Glazier JA (2016) A liver-centric multiscale modeling framework for xenobiotics. PLoS One 11(9):e0162428. https:\/\/doi.org\/10.1371\/journal.pone.0162428.s005","journal-title":"PLoS One"},{"issue":"51","key":"599_CR61","doi-asserted-by":"publisher","first-page":"14621","DOI":"10.1073\/pnas.1521151113","volume":"113","author":"B Smeets","year":"2016","unstructured":"Smeets B, Alert R, Pe\u0161ek J, Pagonabarraga I, Ramon H, Vincent R (2016) Emergent structures and dynamics of cell colonies by contact inhibition of locomotion. Proc Natl Acad Sci USA 113(51):14621\u201314626. https:\/\/doi.org\/10.1073\/pnas.1521151113","journal-title":"Proc Natl Acad Sci USA"},{"issue":"7","key":"599_CR62","doi-asserted-by":"publisher","first-page":"1331","DOI":"10.1016\/j.cell.2009.03.050","volume":"137","author":"J Solon","year":"2009","unstructured":"Solon J, Kaya-Copur A, Colombelli J, Brunner D (2009) Pulsed forces timed by a ratchet-like mechanism drive directed tissue movement during dorsal closure. Cell 137(7):1331\u20131342. https:\/\/doi.org\/10.1016\/j.cell.2009.03.050","journal-title":"Cell"},{"issue":"46","key":"599_CR63","doi-asserted-by":"publisher","first-page":"17255","DOI":"10.1073\/pnas.0605555103","volume":"103","author":"O Sozinova","year":"2006","unstructured":"Sozinova O, Jiang Y, Kaiser D, Alber M (2006) A three-dimensional model of myxobacterial fruiting-body formation. Proc Natl Acad Sci USA 103(46):17255\u201317259. https:\/\/doi.org\/10.1073\/pnas.0605555103","journal-title":"Proc Natl Acad Sci USA"},{"issue":"2","key":"599_CR64","doi-asserted-by":"publisher","first-page":"117","DOI":"10.1007\/s004540010071","volume":"33","author":"DB Staple","year":"2010","unstructured":"Staple DB, Farhadifar R, R\u00f6per JC, Aigouy B, Eaton S, J\u00fclicher F (2010) Mechanics and remodelling of cell packings in epithelia. Eur Phys J E 33(2):117\u2013127. https:\/\/doi.org\/10.1007\/s004540010071","journal-title":"Eur Phys J E"},{"key":"599_CR65","doi-asserted-by":"publisher","first-page":"401","DOI":"10.1126\/science.141.3579.401","volume":"141","author":"M Steinberg","year":"1963","unstructured":"Steinberg M (1963) Reconstruction of tissues by dissociated cells. Science (New York, NY) 141:401\u2013408","journal-title":"Science (New York, NY)"},{"issue":"2","key":"599_CR66","doi-asserted-by":"publisher","first-page":"377","DOI":"10.1006\/dbio.1996.0312","volume":"180","author":"MS Steinberg","year":"1996","unstructured":"Steinberg MS (1996) Adhesion in development: an historical overview. Dev Biol 180(2):377\u2013388. https:\/\/doi.org\/10.1006\/dbio.1996.0312","journal-title":"Dev Biol"},{"issue":"4","key":"599_CR67","doi-asserted-by":"publisher","first-page":"281","DOI":"10.1016\/j.gde.2007.05.002","volume":"17","author":"MS Steinberg","year":"2007","unstructured":"Steinberg MS (2007) Differential adhesion in morphogenesis: a modern view. Curr Opin Genet Dev 17(4):281\u2013286. https:\/\/doi.org\/10.1016\/j.gde.2007.05.002","journal-title":"Curr Opin Genet Dev"},{"issue":"3","key":"599_CR68","doi-asserted-by":"publisher","first-page":"275","DOI":"10.1016\/0022-5193(84)90031-6","volume":"106","author":"D Sulsky","year":"1984","unstructured":"Sulsky D, Childress S, Percus JK (1984) A model of cell sorting. J Theor Biol 106(3):275\u2013301","journal-title":"J Theor Biol"},{"issue":"1","key":"599_CR69","doi-asserted-by":"publisher","first-page":"217","DOI":"10.1016\/j.ydbio.2010.10.017","volume":"351","author":"C Tamulonis","year":"2010","unstructured":"Tamulonis C, Postma M, Marlow HQ, Magie CR, de Jong J, Kaandorp J (2010) A cell-based model of Nematostella vectensis gastrulation including bottle cell formation, invagination and zippering. Dev Biol 351(1):217\u2013228. https:\/\/doi.org\/10.1016\/j.ydbio.2010.10.017","journal-title":"Dev Biol"},{"issue":"14","key":"599_CR70","doi-asserted-by":"publisher","first-page":"2340","DOI":"10.1093\/bioinformatics\/btv147","volume":"31","author":"S Tanaka","year":"2015","unstructured":"Tanaka S, Sichau D, Iber D (2015) LBIBCell: a cell-based simulation environment for morphogenetic problems. Bioinformatics (Oxford, England) 31(14):2340\u20132347. https:\/\/doi.org\/10.1093\/bioinformatics\/btv147","journal-title":"Bioinformatics (Oxford, England)"},{"key":"599_CR71","doi-asserted-by":"publisher","first-page":"172421","DOI":"10.1098\/rsos.172421","volume":"5","author":"S Tlili","year":"2018","unstructured":"Tlili S, Gauquelin E, Li B, Cardoso O, Ladoux B, Delano\u00eb-Ayari H, Graner F (2018) Collective cell migration without proliferation: density determines cell velocity and wave velocity. R Soc Open Sci 5:172421. https:\/\/doi.org\/10.1098\/rsos.172421","journal-title":"R Soc Open Sci"},{"issue":"5896","key":"599_CR72","doi-asserted-by":"publisher","first-page":"1683","DOI":"10.1126\/science.1157052","volume":"321","author":"Y Toyama","year":"2008","unstructured":"Toyama Y, Peralta XG, Wells AR, Kiehart DP, Edwards GS (2008) Apoptotic force and tissue dynamics during Drosophila embryogenesis. Science (New York, NY) 321(5896):1683\u20131686. https:\/\/doi.org\/10.1126\/science.1157052","journal-title":"Science (New York, NY)"},{"issue":"4","key":"599_CR73","doi-asserted-by":"publisher","first-page":"419","DOI":"10.1016\/j.jtbi.2009.12.011","volume":"263","author":"A Voss-B\u00f6hme","year":"2010","unstructured":"Voss-B\u00f6hme A, Deutsch A (2010) The cellular basis of cell sorting kinetics. J Theor Biol 263(4):419\u2013436. https:\/\/doi.org\/10.1016\/j.jtbi.2009.12.011","journal-title":"J Theor Biol"},{"issue":"2","key":"599_CR74","doi-asserted-by":"crossref","first-page":"373","DOI":"10.1242\/dev.109.2.373","volume":"109","author":"M Weliky","year":"1990","unstructured":"Weliky M, Oster G (1990) The mechanical basis of cell rearrangement. I. Epithelial morphogenesis during Fundulus epiboly. Development (Cambridge, England) 109(2):373\u2013386","journal-title":"Development (Cambridge, England)"},{"issue":"9","key":"599_CR75","doi-asserted-by":"publisher","first-page":"e104969","DOI":"10.1371\/journal.pone.0104969.s012","volume":"9","author":"ML Woods","year":"2014","unstructured":"Woods ML, Carmona-Fontaine C, Barnes CP, Couzin ID, Mayor R, Page KM (2014) Directional collective cell migration emerges as a property of cell interactions. PLoS One 9(9):e104969. https:\/\/doi.org\/10.1371\/journal.pone.0104969.s012","journal-title":"PLoS One"}],"container-title":["Bulletin of Mathematical Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/s11538-019-00599-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1007\/s11538-019-00599-9\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/s11538-019-00599-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,9,14]],"date-time":"2022-09-14T21:05:00Z","timestamp":1663189500000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/s11538-019-00599-9"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2019,3,29]]},"references-count":75,"journal-issue":{"issue":"8","published-print":{"date-parts":[[2019,8]]}},"alternative-id":["599"],"URL":"https:\/\/doi.org\/10.1007\/s11538-019-00599-9","relation":{},"ISSN":["0092-8240","1522-9602"],"issn-type":[{"value":"0092-8240","type":"print"},{"value":"1522-9602","type":"electronic"}],"subject":[],"published":{"date-parts":[[2019,3,29]]},"assertion":[{"value":"14 June 2018","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"11 March 2019","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"29 March 2019","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}]}}