Extracting cellular automaton rules from physical Langevin equation models for single and collective cell migration
Cellular automata (CA) are discrete time, space, and state models which are extensively used for modeling biological phenomena. CA are “on-lattice” models with low computational demands. In particular, lattice-gas cellular automata (LGCA) have been introduced as models of single and collective cell...
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description | Cellular automata (CA) are discrete time, space, and state models which are extensively used for modeling biological phenomena. CA are “on-lattice” models with low computational demands. In particular, lattice-gas cellular automata (LGCA) have been introduced as models of single and collective cell migration. The interaction rule dictates the behavior of a cellular automaton model and is critical to the model’s biological relevance. The LGCA model’s interaction rule has been typically chosen phenomenologically. In this paper, we introduce a method to obtain lattice-gas cellular automaton interaction rules from physically-motivated “off-lattice” Langevin equation models for migrating cells. In particular, we consider Langevin equations related to single cell movement (movement of cells independent of each other) and collective cell migration (movement influenced by cell-cell interactions). As examples of collective cell migration, two different alignment mechanisms are studied: polar and nematic alignment. Both kinds of alignment have been observed in biological systems such as swarms of amoebae and myxobacteria. Polar alignment causes cells to align their velocities parallel to each other, whereas nematic alignment drives cells to align either parallel or antiparallel to each other. Under appropriate assumptions, we have derived the LGCA transition probability rule from the steady-state distribution of the off-lattice Fokker-Planck equation. Comparing alignment order parameters between the original Langevin model and the derived LGCA for both mechanisms, we found different areas of agreement in the parameter space. Finally, we discuss potential reasons for model disagreement and propose extensions to the CA rule derivation methodology. |
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M. ; Hatzikirou, H. ; Peruani, F. ; Deutsch, A.</creator><creatorcontrib>Nava-Sedeño, J. M. ; Hatzikirou, H. ; Peruani, F. ; Deutsch, A.</creatorcontrib><description>Cellular automata (CA) are discrete time, space, and state models which are extensively used for modeling biological phenomena. CA are “on-lattice” models with low computational demands. In particular, lattice-gas cellular automata (LGCA) have been introduced as models of single and collective cell migration. The interaction rule dictates the behavior of a cellular automaton model and is critical to the model’s biological relevance. The LGCA model’s interaction rule has been typically chosen phenomenologically. In this paper, we introduce a method to obtain lattice-gas cellular automaton interaction rules from physically-motivated “off-lattice” Langevin equation models for migrating cells. In particular, we consider Langevin equations related to single cell movement (movement of cells independent of each other) and collective cell migration (movement influenced by cell-cell interactions). As examples of collective cell migration, two different alignment mechanisms are studied: polar and nematic alignment. Both kinds of alignment have been observed in biological systems such as swarms of amoebae and myxobacteria. Polar alignment causes cells to align their velocities parallel to each other, whereas nematic alignment drives cells to align either parallel or antiparallel to each other. Under appropriate assumptions, we have derived the LGCA transition probability rule from the steady-state distribution of the off-lattice Fokker-Planck equation. Comparing alignment order parameters between the original Langevin model and the derived LGCA for both mechanisms, we found different areas of agreement in the parameter space. Finally, we discuss potential reasons for model disagreement and propose extensions to the CA rule derivation methodology.</description><identifier>ISSN: 0303-6812</identifier><identifier>EISSN: 1432-1416</identifier><identifier>DOI: 10.1007/s00285-017-1106-9</identifier><identifier>PMID: 28243720</identifier><language>eng</language><publisher>Berlin/Heidelberg: Springer Berlin Heidelberg</publisher><subject>Alignment ; Applications of Mathematics ; Automata theory ; Cell adhesion & migration ; Cell Communication - physiology ; Cell interactions ; Cell migration ; Cell Movement - physiology ; Cellular automata ; Computer applications ; Computer Simulation ; Fokker-Planck equation ; Fourier Analysis ; Kinetics ; Mathematical and Computational Biology ; Mathematical Concepts ; Mathematical models ; Mathematics ; Mathematics and Statistics ; Models, Biological ; Movement - physiology ; Nematic ; Order parameters ; Stochastic Processes</subject><ispartof>Journal of mathematical biology, 2017-11, Vol.75 (5), p.1075-1100</ispartof><rights>Springer-Verlag Berlin Heidelberg 2017</rights><rights>Journal of Mathematical Biology is a copyright of Springer, 2017.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c372t-f8f29710d8694675ef4cafc2322057fe4c7cd4380ee7b3c3f8a55723275d34503</citedby><cites>FETCH-LOGICAL-c372t-f8f29710d8694675ef4cafc2322057fe4c7cd4380ee7b3c3f8a55723275d34503</cites><orcidid>0000-0001-9451-8676</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s00285-017-1106-9$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s00285-017-1106-9$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/28243720$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Nava-Sedeño, J. M.</creatorcontrib><creatorcontrib>Hatzikirou, H.</creatorcontrib><creatorcontrib>Peruani, F.</creatorcontrib><creatorcontrib>Deutsch, A.</creatorcontrib><title>Extracting cellular automaton rules from physical Langevin equation models for single and collective cell migration</title><title>Journal of mathematical biology</title><addtitle>J. Math. Biol</addtitle><addtitle>J Math Biol</addtitle><description>Cellular automata (CA) are discrete time, space, and state models which are extensively used for modeling biological phenomena. CA are “on-lattice” models with low computational demands. In particular, lattice-gas cellular automata (LGCA) have been introduced as models of single and collective cell migration. The interaction rule dictates the behavior of a cellular automaton model and is critical to the model’s biological relevance. The LGCA model’s interaction rule has been typically chosen phenomenologically. In this paper, we introduce a method to obtain lattice-gas cellular automaton interaction rules from physically-motivated “off-lattice” Langevin equation models for migrating cells. In particular, we consider Langevin equations related to single cell movement (movement of cells independent of each other) and collective cell migration (movement influenced by cell-cell interactions). As examples of collective cell migration, two different alignment mechanisms are studied: polar and nematic alignment. Both kinds of alignment have been observed in biological systems such as swarms of amoebae and myxobacteria. Polar alignment causes cells to align their velocities parallel to each other, whereas nematic alignment drives cells to align either parallel or antiparallel to each other. Under appropriate assumptions, we have derived the LGCA transition probability rule from the steady-state distribution of the off-lattice Fokker-Planck equation. Comparing alignment order parameters between the original Langevin model and the derived LGCA for both mechanisms, we found different areas of agreement in the parameter space. Finally, we discuss potential reasons for model disagreement and propose extensions to the CA rule derivation methodology.</description><subject>Alignment</subject><subject>Applications of Mathematics</subject><subject>Automata theory</subject><subject>Cell adhesion & migration</subject><subject>Cell Communication - physiology</subject><subject>Cell interactions</subject><subject>Cell migration</subject><subject>Cell Movement - physiology</subject><subject>Cellular automata</subject><subject>Computer applications</subject><subject>Computer Simulation</subject><subject>Fokker-Planck equation</subject><subject>Fourier Analysis</subject><subject>Kinetics</subject><subject>Mathematical and Computational Biology</subject><subject>Mathematical Concepts</subject><subject>Mathematical models</subject><subject>Mathematics</subject><subject>Mathematics and Statistics</subject><subject>Models, Biological</subject><subject>Movement - physiology</subject><subject>Nematic</subject><subject>Order parameters</subject><subject>Stochastic Processes</subject><issn>0303-6812</issn><issn>1432-1416</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2017</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><recordid>eNp1kUtLxDAUhYMoOj5-gBsJuHFTzaNt0qWILxhwo-sQ05uxkjZj0or-e-84KiK4yV3c754cziHkkLNTzpg6y4wJXRWMq4JzVhfNBpnxUoqCl7zeJDMmmSxqzcUO2c35mSFYNXyb7AgtSqkEm5F8-TYm68ZuWFAHIUzBJmqnMfZ2jANNU4BMfYo9XT69587ZQOd2WMBrN1B4mezYIdXHFgJiMdGMQgGoHVrqYgiAyq_wqUz7bpE--X2y5W3IcPA198jD1eX9xU0xv7u-vTifFw69jYXXXjSKs1bXTVmrCnzprHdCCsEq5aF0yrWl1AxAPUonvbZVpXCtqlaWFZN75GStu0zxZYI8mr7LKyt2gDhlw7USWuMrET3-gz7HKQ3ozvBGao5BNgIpvqZcijkn8GaZut6md8OZWTVi1o0YDNqsGjEN3hx9KU-PPbQ_F98VICDWQMYVJpt-ff2v6gf3pJcP</recordid><startdate>20171101</startdate><enddate>20171101</enddate><creator>Nava-Sedeño, J. 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M.</au><au>Hatzikirou, H.</au><au>Peruani, F.</au><au>Deutsch, A.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Extracting cellular automaton rules from physical Langevin equation models for single and collective cell migration</atitle><jtitle>Journal of mathematical biology</jtitle><stitle>J. Math. Biol</stitle><addtitle>J Math Biol</addtitle><date>2017-11-01</date><risdate>2017</risdate><volume>75</volume><issue>5</issue><spage>1075</spage><epage>1100</epage><pages>1075-1100</pages><issn>0303-6812</issn><eissn>1432-1416</eissn><abstract>Cellular automata (CA) are discrete time, space, and state models which are extensively used for modeling biological phenomena. CA are “on-lattice” models with low computational demands. In particular, lattice-gas cellular automata (LGCA) have been introduced as models of single and collective cell migration. The interaction rule dictates the behavior of a cellular automaton model and is critical to the model’s biological relevance. The LGCA model’s interaction rule has been typically chosen phenomenologically. In this paper, we introduce a method to obtain lattice-gas cellular automaton interaction rules from physically-motivated “off-lattice” Langevin equation models for migrating cells. In particular, we consider Langevin equations related to single cell movement (movement of cells independent of each other) and collective cell migration (movement influenced by cell-cell interactions). As examples of collective cell migration, two different alignment mechanisms are studied: polar and nematic alignment. Both kinds of alignment have been observed in biological systems such as swarms of amoebae and myxobacteria. Polar alignment causes cells to align their velocities parallel to each other, whereas nematic alignment drives cells to align either parallel or antiparallel to each other. Under appropriate assumptions, we have derived the LGCA transition probability rule from the steady-state distribution of the off-lattice Fokker-Planck equation. Comparing alignment order parameters between the original Langevin model and the derived LGCA for both mechanisms, we found different areas of agreement in the parameter space. Finally, we discuss potential reasons for model disagreement and propose extensions to the CA rule derivation methodology.</abstract><cop>Berlin/Heidelberg</cop><pub>Springer Berlin Heidelberg</pub><pmid>28243720</pmid><doi>10.1007/s00285-017-1106-9</doi><tpages>26</tpages><orcidid>https://orcid.org/0000-0001-9451-8676</orcidid></addata></record> |
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subjects | Alignment Applications of Mathematics Automata theory Cell adhesion & migration Cell Communication - physiology Cell interactions Cell migration Cell Movement - physiology Cellular automata Computer applications Computer Simulation Fokker-Planck equation Fourier Analysis Kinetics Mathematical and Computational Biology Mathematical Concepts Mathematical models Mathematics Mathematics and Statistics Models, Biological Movement - physiology Nematic Order parameters Stochastic Processes |
title | Extracting cellular automaton rules from physical Langevin equation models for single and collective cell migration |
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