J. Comput. Biol. - Cytopede: a three-dimensional tool for modeling cell motility on a flat surface.

Tópicos

{ model(2220) cell(1177) simul(1124) }
{ model(3480) simul(1196) paramet(876) }
{ structur(1116) can(940) graph(676) }
{ imag(1947) propos(1133) code(1026) }
{ motion(1329) object(1292) video(1091) }
{ framework(1458) process(801) describ(734) }
{ spatial(1525) area(1432) region(1030) }
{ activ(1452) weight(1219) physic(1104) }
{ take(945) account(800) differ(722) }
{ general(901) number(790) one(736) }
{ state(1844) use(1261) util(961) }
{ drug(1928) target(777) effect(648) }
{ implement(1333) system(1263) develop(1122) }
{ problem(2511) optim(1539) algorithm(950) }
{ chang(1828) time(1643) increas(1301) }
{ learn(2355) train(1041) set(1003) }
{ concept(1167) ontolog(924) domain(897) }
{ clinic(1479) use(1117) guidelin(835) }
{ method(1557) propos(1049) approach(1037) }
{ design(1359) user(1324) use(1319) }
{ method(984) reconstruct(947) comput(926) }
{ data(3963) clinic(1234) research(1004) }
{ perform(999) metric(946) measur(919) }
{ visual(1396) interact(850) tool(830) }
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{ group(2977) signific(1463) compar(1072) }
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{ survey(1388) particip(1329) question(1065) }
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Resumo

When cultured on flat surfaces, fibroblasts and many other cells spread to form thin lamellar sheets. Motion then occurs by extension of the sheet at the leading edge and retraction at the trailing edge. Comprehensive quantitative models of these phenomena have so far been lacking and to address this need, we have designed a three-dimensional code called Cytopede specialized for the simulation of the mechanical and signaling behavior of plated cells. Under assumptions by which the cytosol and the cytoskeleton are treated from a continuum mechanical perspective, Cytopede uses the finite element method to solve mass and momentum equations for each phase, and thus determine the time evolution of cellular models. We present the physical concepts that underlie Cytopede together with the algorithms used for their implementation. We then validate the approach by a computation of the spread of a viscous sessile droplet. Finally, to exemplify how Cytopede enables the testing of ideas about cell mechanics, we simulate a simple fibroblast model. We show how Cytopede allows computation, not only of basic characteristics of shape and velocity, but also of maps of cell thickness, cytoskeletal density, cytoskeletal flow, and substratum tractions that are readily compared with experimental data.

Resumo Limpo

cultur flat surfac fibroblast mani cell spread form thin lamellar sheet motion occur extens sheet lead edg retract trail edg comprehens quantit model phenomena far lack address need design threedimension code call cytoped special simul mechan signal behavior plate cell assumpt cytosol cytoskeleton treat continuum mechan perspect cytoped use finit element method solv mass momentum equat phase thus determin time evolut cellular model present physic concept underli cytoped togeth algorithm use implement valid approach comput spread viscous sessil droplet final exemplifi cytoped enabl test idea cell mechan simul simpl fibroblast model show cytoped allow comput basic characterist shape veloc also map cell thick cytoskelet densiti cytoskelet flow substratum traction readili compar experiment data

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