MDCK Cystogenesis Driven by Cell Stabilization within Computational Analogues
Publication Date
April 07, 2011
Journal
PLOS Computational Biology
Authors
Jesse A. Engelberg, Anirban Datta, Keith E. Mostov & C. Anthony Hunt
Volume
7
Issue
4
Pages
e1002030
DOI
https://dx.plos.org/10.1371/journal.pcbi.1002030
Publisher URL
http://journals.plos.org/ploscompbiol/article?id=10.1371%2Fjournal.pcbi.1002030
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/21490722
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3072361
Europe PMC
http://europepmc.org/abstract/MED/21490722
Web of Science
000289973600014
Scopus
79955559185
Mendeley
http://www.mendeley.com/research/mdck-cystogenesis-driven-cell-stabilization-within-computational-analogues
Events
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Mendeley | Further Information

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Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/393535", "https://ndownloader.figshare.com/files/393560", "https://ndownloader.figshare.com/files/393586", "https://ndownloader.figshare.com/files/393618", "https://ndownloader.figshare.com/files/393638", "https://ndownloader.figshare.com/files/393653", "https://ndownloader.figshare.com/files/393675", "https://ndownloader.figshare.com/files/393693", "https://ndownloader.figshare.com/files/393718", "https://ndownloader.figshare.com/files/393734", "https://ndownloader.figshare.com/files/393752", "https://ndownloader.figshare.com/files/393848", "https://ndownloader.figshare.com/files/393877", "https://ndownloader.figshare.com/files/393897", "https://ndownloader.figshare.com/files/393919", "https://ndownloader.figshare.com/files/393935", "https://ndownloader.figshare.com/files/393949", "https://ndownloader.figshare.com/files/393968", "https://ndownloader.figshare.com/files/393998", "https://ndownloader.figshare.com/files/394009"], "description"=>"<div><p>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.</p> </div>", "links"=>[], "tags"=>["mdck", "cystogenesis", "driven", "stabilization", "computational", "analogues"], "article_id"=>137717, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.s001", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s002", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s003", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s004", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s005", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s006", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s007", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s008", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s009", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s010", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s011", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s012", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s013", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s014", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s015", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s016", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s017", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s018", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s019", "https://dx.doi.org/10.1371/journal.pcbi.1002030.s020"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/MDCK_Cystogenesis_Driven_by_Cell_Stabilization_within_Computational___Analogues/137717", "title"=>"MDCK Cystogenesis Driven by Cell Stabilization within Computational\n Analogues", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2011-04-07 02:08:37"}
  • {"files"=>["https://ndownloader.figshare.com/files/784118"], "description"=>"<p>Culture conditions were as described in the text. Confocal images were\n recorded on the indicated day during cystogenesis. Colors reflect\n component staining as follows: red: actin; green: gp135/podocalyxn;\n yellow: red and green colocated; blue: nuclein; black: Matrigel. ML: a\n multi-lumen cyst. The arrow indicates a second, small lumen. Not SLSL:\n this single lumen cyst does not have a single layer of cells. The arrow\n indicates a cell not in contact with lumen.</p>", "links"=>[], "tags"=>["vitro", "mdck", "cyst"], "article_id"=>454493, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.g001"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_In_vitro_MDCK_cyst_cross_sections_/454493", "title"=>"In vitro MDCK cyst cross-sections.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-04-07 01:14:53"}
  • {"files"=>["https://ndownloader.figshare.com/files/784247"], "description"=>"<p>Mean values and standard deviations for (A) cell number per cyst, (B)\n cyst and lumen area, (C) mean individual cell area and (D) ratio:\n cellular to cyst area. Blue: in vitro data taken each day for ten days\n from 20 cysts. Red: data taken from 50 cysts over ten\n days using the parameter values in <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi-1002030-t002\" target=\"_blank\">Table 2</a>. Gray boxes: noted changes in\n behavior. Blue lines: slope of in vitro growth illustrating changes in\n rate. SSM1: Self -Similarity Measure of in vitro growth; SSM1 indicates\n the percentage of in vitro values each day that fell within\n ±25% of the mean in vitro value for that day. SM1:\n Similarity Measure for ISMA growth. SM1 indicates the percentage of ISMA\n values each day that fell within ±25% of the mean in vitro\n value for that day. The target was that SM1>0.5 for nine of ten\n days. When the target was met, we posited that ISMA\n measures were experimentally indistinguishable from in vitro measures.\n Gray SM values did not achieve targeted values.</p>", "links"=>[], "tags"=>["measures", "vitro", "silico"], "article_id"=>454617, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.g002"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Quantitative_measures_of_in_vitro_and_in_silico_cystogenesis_/454617", "title"=>"Quantitative measures of in vitro and in silico cystogenesis.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-04-07 01:16:57"}
  • {"files"=>["https://ndownloader.figshare.com/files/784359"], "description"=>"<p>(A) Percentage of cysts that have single (solid circle) or multiple (open\n circle) lumens. (B) Percentage of SLSL (single-layer, single-lumen)\n cysts. Blue: in vitro data for 20 cysts taken each day for ten days.\n Red: in silico data for 50 cysts using parameters values from\n <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi-1002030-t002\" target=\"_blank\">Table 2</a>.\n Black: mean and standard deviation for “normal” MDCK cysts\n observed by Zheng et al. <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi.1002030-Zheng1\" target=\"_blank\">[6]</a> as described in the text. Solid lines\n represent continuous growth of ISMA cysts. Dotted lines\n represent discrete growth of MDCK cysts.</p>", "links"=>[], "tags"=>["cysts", "numbers"], "article_id"=>454734, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.g003"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Percentage_of_cysts_with_different_numbers_of_lumens_/454734", "title"=>"Percentage of cysts with different numbers of lumens.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-04-07 01:18:54"}
  • {"files"=>["https://ndownloader.figshare.com/files/784427"], "description"=>"<p>Note that a regular hexagon in hexagonal space maps to a circle in\n continuous space. Images are from a single simulation run using\n parameter settings from <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi-1002030-t002\" target=\"_blank\">Table 2</a>. Cells are unpolarized (green),\n polarized (gray) or stabilized (orange).\n Cell-cell and cell-matrix\n borders are red; cell-lumen borders are yellow;\n lumens are blue. Lower right panel: shown is a\n multi-lumencyst. Not SLSL: this single lumencyst does not have a single layer of cells. The arrow\n indicates two cells not in contact with lumen.</p>", "links"=>[], "tags"=>["silico", "mdck", "analogue"], "article_id"=>454798, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.g004"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_In_silico_MDCK_analogue_cyst_cross_sections_/454798", "title"=>"In silico MDCK analogue cyst cross sections.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-04-07 01:19:58"}
  • {"files"=>["https://ndownloader.figshare.com/files/784504"], "description"=>"<p>(A) In vitro data reproduced from <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi.1002030-MartnBelmonte2\" target=\"_blank\">[9]</a>. (B) ISMA\n data from 50 cysts over ten days. Blue bars:\n percentage of cysts observed to have apoptotic cells without matrix\n contact. Red bars: percentage of cysts observed to have apoptotic cells\n with matrix contact.</p>", "links"=>[], "tags"=>["cysts"], "article_id"=>454872, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.g005"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Percentage_of_cysts_with_dying_cells_/454872", "title"=>"Percentage of cysts with dying cells.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-04-07 01:21:12"}
  • {"files"=>["https://ndownloader.figshare.com/files/784575"], "description"=>"<p>Shown are the percentages of cysts that have single (solid red\n circles) or multiple (open red circles) lumens when the axis\n division is (A) random or (B) reversed (rotated 90°)\n along with the percentage of cysts that are SLSL (purple\n circles) when the axis of celldivision is (A) random or (B) reversed. Black (A and B): mean\n and standard deviation for “normal” MDCK cysts observed by\n Zheng et al. <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi.1002030-Zheng1\" target=\"_blank\">[6]</a>. The in vitro control data are shown in <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi-1002030-g003\" target=\"_blank\">Figure 3</a>.</p>", "links"=>[], "tags"=>["isma", "varied", "number", "axis"], "article_id"=>454940, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.g006"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Percentage_of_ISMA_cysts_with_varied_lumen_number____when_the_axis_of_cell_division_is_abnormal_/454940", "title"=>"Percentage of ISMA cysts with varied lumen number\n when the axis of celldivision is abnormal.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-04-07 01:22:20"}
  • {"files"=>["https://ndownloader.figshare.com/files/784623"], "description"=>"<p>ISMA simulations executed with the parameter values from <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi-1002030-t002\" target=\"_blank\">Table 2</a> except that\n luminalcelldeath was not allowed. (A) Red: mean values and standard\n deviations for cell number per cyst. Blue: in vitro\n control data from <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi-1002030-g002\" target=\"_blank\">Figure\n 2A</a>. (B) Percentage of SLSL cysts.</p>", "links"=>[], "tags"=>["measures"], "article_id"=>454994, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.g007"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_C_ystogenesis_measures_with_no_luminal_cell_death_/454994", "title"=>"Cystogenesis measures with no luminalcelldeath.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-04-07 01:23:14"}
  • {"files"=>["https://ndownloader.figshare.com/files/784677"], "description"=>"<p>ISMA simulations executed with the parameters values from <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi-1002030-t002\" target=\"_blank\">Table 2</a> except that\n cellpolarization was delayed as described in the text. Left: mean\n values and standard deviations for cell number per\n cyst (top panel) and ratio of cellular to\n cyst area (bottom panel). Right: Percentage of\n cysts with single, multiple, and SLSL lumens. Designations\n and symbols are the same as in <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi-1002030-g002\" target=\"_blank\">Figures 2</a> and <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi-1002030-g003\" target=\"_blank\">3</a>.</p>", "links"=>[], "tags"=>["measures", "was"], "article_id"=>455047, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.g008"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_C_ystogenesis_measures_when_cell_polarization_was_delayed_/455047", "title"=>"Cystogenesis measures when cellpolarization was delayed.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-04-07 01:24:07"}
  • {"files"=>["https://ndownloader.figshare.com/files/784760"], "description"=>"<p>Left: MDCK cell cultures are the referent wet-lab systems. During\n experiments, cells draw on genetically controlled operating principles,\n and cystogenesis is the result. Influential mechanistic details are\n reflected in the collected data. Right: an abstract mechanistic\n description, a set of targeted attributes, and specifications paired to\n those attributes direct analogue design. Software components are\n designed, specified, coded, verified, and assembled guided by that\n mechanistic description. The product of the process is a collection of\n abstract mechanisms rendered in software. A clear mapping is intended\n between ISMA cells, their axioms and operating principles, and\n MDCK cell and intracellular details. Relative\n similarity is controlled in part by parameterizations. Importantly, that\n mapping can be concretized iteratively. Compilation and source code\n execution gives rise to a working ISMA. Its dynamics are intended to\n represent abstractly corresponding dynamics (both observed in movies and\n believed to occur) within cultures during ten-day experiments. That\n mapping can also be concretized iteratively. Measures of\n cystogenesis provide time series data that are intended to\n be quantitatively similar (according to prespecified criteria) to\n corresponding measures of MDCK cell cystogenesis. Achieving increasingly\n stringent SMs provides degrees of validation.</p>", "links"=>[], "tags"=>["vitro"], "article_id"=>455130, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.g009"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_ISMA_to_in_vitro_cell_culture_mappings_/455130", "title"=>"ISMA-to-in vitro cell culture mappings.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-04-07 01:25:30"}
  • {"files"=>["https://ndownloader.figshare.com/files/784806"], "description"=>"<p>During a simulation cycle, each cell steps through five logic\n modules sequentially to decide which actions to take based on its local\n environment and internal state. A lumen's target\n area is adjusted; lumens can merge with each other.\n Cells that are not dying may begin to do so.\n Cells adjust their area based on their state and the state\n of neighboring cells; they stabilize if the lumen has\n reached a critical size. Cells can create new lumens.\n Under specified conditions they can divide to form new cells.\n Future versions of ISMA logic may randomize action control in order to\n simulate the parallel nature of event occurrence both within MDCK\n cultures and within each cell. See <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002030#pcbi.1002030.s012\" target=\"_blank\">Figure\n S12</a> for complete details of the logic within each of the five\n modules.</p>", "links"=>[], "tags"=>["isma"], "article_id"=>455177, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.g010"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Key_features_of_ISMA_logic_and_decision_control_flow_/455177", "title"=>"Key features of ISMA logic and decision control flow.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-04-07 01:26:17"}
  • {"files"=>["https://ndownloader.figshare.com/files/784876"], "description"=>"<p>An <i>MCell</i> point has no specific cystogenesis counterpart.\n Once per simulation cycle, each point is assigned to the\n <i>MCell</i> agent associated with the cell\n enclosing that point. <i>MCell</i> point lists are initialized\n during each simulation cycle. Additionally, surrounding cells\n engulf isolated points.</p>", "links"=>[], "tags"=>["physiology", "Computational biology"], "article_id"=>455246, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.g011"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_MCell_point_assignment_flow_chart_/455246", "title"=>"<i>MCell</i> point assignment flow chart.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-04-07 01:27:26"}
  • {"files"=>["https://ndownloader.figshare.com/files/784954"], "description"=>"<p>Single isolated cells (top) that have not divided have\n no midbody and divide with a random axis of\n division. When cellsdivide they find their centroid and store it as the\n midbody of their daughter cells. Cells\n that have previously divided and have a midbody\n utilize it for subsequent divisions. For these organized\n divisions (top), the axis of division is\n determined by a line drawn from a cell's current centroid\n to the stored midbody. Cells in contact with a\n lumen will also divide in an organized fashion\n (bottom), using a line between their centroid and that of the\n lumen to determine the axis of division. When the\n axis of division is determined, all points on one side of the\n line are assigned to a new cell while all points on the other\n remain assigned to the original cell.</p>", "links"=>[], "tags"=>["depends"], "article_id"=>455325, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.g012"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_ISMA_cell_division_C_ell_division_depends_on_the_cell_neighborhood_/455325", "title"=>"ISMA celldivision. Celldivision depends on the cell neighborhood.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-04-07 01:28:45"}
  • {"files"=>["https://ndownloader.figshare.com/files/785018"], "description"=>"<p>Parameters critical to the operation of the ISMA are listed along\n with descriptions, default value used for simulation, and the range\n of values explored. To switch between the LS ISMA and the TS ISMA\n the values of <i>shiftDelay</i> and\n <i>stableRatio</i> are changed from 140,000 and 0.5 to\n 200 and 1000. All units are relational (e.g., grid points instead of\n µM, simulation cycles instead of hours).</p>", "links"=>[], "tags"=>["isma"], "article_id"=>455392, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.t002"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Primary_ISMA_parameters_/455392", "title"=>"Primary ISMA parameters.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2011-04-07 01:29:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/785056"], "description"=>"<p>*This event exists only within the ISMA system and has no\n specific cystogenesis counterpart.</p><p>All cell events produce a visible change within the ISMA\n visualization. Events that map to intracellular events result in a\n change within a cell, but do not produce a visible change\n within the ISMA. Cell-level events map to equivalent events\n between in vitro MDCK cells, lumen, and matrix, while\n intracellular events map to events (less well\n understood) within in vitro MDCK cells.</p>", "links"=>[], "tags"=>["events", "within", "simulation"], "article_id"=>455427, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.t003"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_C_ell_and_intracellular_events_that_can_occur_within____a_simulation_cycle_/455427", "title"=>"Cell and intracellular events that can occur within\n a simulation cycle.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2011-04-07 01:30:27"}
  • {"files"=>["https://ndownloader.figshare.com/files/785080"], "description"=>"<p>MDCK cells and cysts are the referent. The model system is called an\n in silico MDCK analogue (ISMA). <b>A:</b> a targeted\n attribute; <b>S:</b> an ISMA specification. All listed\n attributes were achieved. The early version of the ISMA achieved TAs\n 1-4, but was falsified by the quantitative data. The refined ISMA\n achieved all TAs except 11, which was achieved by both the LS and\n the TS ISMAs.</p>", "links"=>[], "tags"=>["attributes"], "article_id"=>455453, "categories"=>["Physiology", "Biological Sciences"], "users"=>["Jesse A. Engelberg", "Anirban Datta", "Keith E. Mostov", "C. Anthony Hunt"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1002030.t001"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Targeted_attributes_and_specifications_/455453", "title"=>"Targeted attributes and specifications.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2011-04-07 01:30:53"}

PMC Usage Stats | Further Information

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Relative Metric

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