{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,26]],"date-time":"2026-04-26T07:21:12Z","timestamp":1777188072072,"version":"3.51.4"},"reference-count":29,"publisher":"Public Library of Science (PLoS)","issue":"3","license":[{"start":{"date-parts":[[2015,3,19]],"date-time":"2015-03-19T00:00:00Z","timestamp":1426723200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.ploscompbiol.org"],"crossmark-restriction":false},"short-container-title":["PLoS Comput Biol"],"DOI":"10.1371\/journal.pcbi.1004131","type":"journal-article","created":{"date-parts":[[2015,3,19]],"date-time":"2015-03-19T18:34:44Z","timestamp":1426790084000},"page":"e1004131","update-policy":"https:\/\/doi.org\/10.1371\/journal.pcbi.corrections_policy","source":"Crossref","is-referenced-by-count":30,"title":["Integrating Interactive Computational Modeling in Biology Curricula"],"prefix":"10.1371","volume":"11","author":[{"given":"Tom\u00e1\u0161","family":"Helikar","sequence":"first","affiliation":[]},{"given":"Christine E.","family":"Cutucache","sequence":"additional","affiliation":[]},{"given":"Lauren M.","family":"Dahlquist","sequence":"additional","affiliation":[]},{"given":"Tyler A.","family":"Herek","sequence":"additional","affiliation":[]},{"given":"Joshua J.","family":"Larson","sequence":"additional","affiliation":[]},{"given":"Jim A.","family":"Rogers","sequence":"additional","affiliation":[]}],"member":"340","published-online":{"date-parts":[[2015,3,19]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"206","DOI":"10.1038\/nature01254","article-title":"Computational systems biology","volume":"420","author":"H Kitano","year":"2002","journal-title":"Nature"},{"key":"ref2","doi-asserted-by":"crossref","first-page":"844","DOI":"10.1016\/j.cell.2011.03.008","article-title":"Network News: Innovations in 21st Century Systems Biology","volume":"144","author":"AP Arkin","year":"2011","journal-title":"Cell"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"1913","DOI":"10.1242\/jcs.112045","article-title":"Models of signalling networks\u2014what cell biologists can gain from them and give to them","volume":"126","author":"KA Janes","year":"2013","journal-title":"J Cell Sci"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"171","DOI":"10.1207\/s1532690xci2402_1","article-title":"Thinking Like a Wolf, a Sheep, or a Firefly: Learning Biology through Constructing and Testing Computational Theories\u2014An Embodied Modeling Approach","volume":"24","author":"U Wilensky","year":"2005","journal-title":"Cogn Instr"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"124","DOI":"10.1187\/cbe.13-03-0057","article-title":"On the edge of mathematics and biology integration: improving quantitative skills in undergraduate biology education","volume":"12","author":"J Feser","year":"2013","journal-title":"CBE Life Sci Educ"},{"key":"ref6","unstructured":"American Association for the Advancement of Science (AAAS) (2011) Vision and Change in Undergraduate Biology Education. <ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/visionandchange.org\/\" xlink:type=\"simple\">http:\/\/visionandchange.org\/<\/ext-link>. Accessed 20 December 2013."},{"key":"ref7","doi-asserted-by":"crossref","first-page":"235","DOI":"10.1023\/B:EDPR.0000034022.16470.f3","article-title":"Problem-Based Learning: What and How Do Students Learn?","volume":"16","author":"CE Hmelo-Silver","year":"2004","journal-title":"Educ Psychol Rev"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"023102","DOI":"10.1103\/PhysRevSTPER.9.023102","article-title":"Use of research-based instructional strategies: How to avoid faculty quitting","volume":"9","author":"C Wieman","year":"2013","journal-title":"Phys Rev Spec Top\u2014Phys Educ Res"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"e64","DOI":"10.1080\/01421590600617574","article-title":"Attitudes to concept maps as a teaching\/learning activity in undergraduate health professional education: influence of preferred approach to learning","volume":"28","author":"DW Laight","year":"2006","journal-title":"Med Teach"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"254","DOI":"10.1525\/bio.2013.63.4.4","article-title":"PULSE: Implementing Change within and among Life Science Departments","volume":"63","author":"S Musante","year":"2013","journal-title":"Bioscience"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"96","DOI":"10.1186\/1752-0509-6-96","article-title":"The Cell Collective: Toward an open and collaborative approach to systems biology","volume":"6","author":"T Helikar","year":"2012","journal-title":"BMC Syst Biol"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"393","DOI":"10.1038\/clpt.2013.41","article-title":"A cell simulator platform: the cell collective","volume":"93","author":"T Helikar","year":"2013","journal-title":"Clin Pharmacol Ther"},{"key":"ref13","first-page":"932932","article-title":"EGFR Signaling in Colorectal Carcinoma","volume":"2011","author":"AM Krasinskas","year":"2011","journal-title":"Patholog Res Int"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"3","DOI":"10.1016\/S0003-9861(02)00244-8","article-title":"Untying the regulation of the Raf-1 kinase","volume":"404","author":"AS Dhillon","year":"2002","journal-title":"Arch Biochem Biophys"},{"key":"ref15","doi-asserted-by":"crossref","first-page":"177","DOI":"10.1038\/224177a0","article-title":"Homeostasis and differentiation in random genetic control networks","volume":"224","author":"S Kauffman","year":"1969","journal-title":"Nature"},{"key":"ref16","doi-asserted-by":"crossref","first-page":"565","DOI":"10.1016\/0022-5193(73)90247-6","article-title":"Boolean formalisation of genetic control circuits","volume":"42","author":"R Thomas","year":"1973","journal-title":"J Theor Biol"},{"key":"ref17","doi-asserted-by":"crossref","first-page":"135","DOI":"10.1186\/1752-0509-7-135","article-title":"SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools","volume":"7","author":"C Chaouiya","year":"2013","journal-title":"BMC Syst Biol"},{"key":"ref18","first-page":"16","article-title":"Boolean Modeling of Biochemical Networks","volume":"4","author":"T Helikar","year":"2011","journal-title":"Open Bioinforma J"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"134","DOI":"10.1016\/j.biosystems.2009.04.008","article-title":"Logical modelling of regulatory networks with GINsim 2.3","volume":"97","author":"A Naldi","year":"2009","journal-title":"Biosystems"},{"key":"ref20","doi-asserted-by":"crossref","first-page":"641","DOI":"10.1016\/j.jtbi.2010.07.022","article-title":"Attractor analysis of asynchronous Boolean models of signal transduction networks","volume":"266","author":"A Saadatpour","year":"2010","journal-title":"J Theor Biol"},{"key":"ref21","article-title":"Cancer Biology: An inquiry based approach","author":"CE Cutucache","year":"2014"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"1557","DOI":"10.1182\/blood-2008-05-078154","article-title":"CD4 T cells: fates, functions, and faults","volume":"112","author":"J Zhu","year":"2008","journal-title":"Blood"},{"key":"ref23","article-title":"Janeway\u2019s Immunobiology","author":"K Murphy","year":"2012"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"96","DOI":"10.1016\/j.biosystems.2013.05.007","article-title":"The regulatory network that controls the differentiation of T lymphocytes","volume":"113","author":"P Mart\u00ednez-Sosa","year":"2013","journal-title":"Biosystems"},{"key":"ref25","doi-asserted-by":"crossref","first-page":"e1000912","DOI":"10.1371\/journal.pcbi.1000912","article-title":"Diversity and plasticity of Th cell types predicted from regulatory network modelling","volume":"6","author":"A Naldi","year":"2010","journal-title":"PLoS Comput Biol"},{"key":"ref26","doi-asserted-by":"crossref","first-page":"101","DOI":"10.1016\/j.biosystems.2005.10.004","article-title":"A network model for the control of the differentiation process in Th cells","volume":"84","author":"L Mendoza","year":"2006","journal-title":"Biosystems"},{"key":"ref27","author":"U Wilensky","year":"1999"},{"key":"ref28","author":"KM Becker","year":"2013"},{"issue":"6","key":"ref29","doi-asserted-by":"crossref","first-page":"988","DOI":"10.1007\/s11538-012-9777-2","article-title":"Dynamics of Influenza Virus and Human Host Interactions During Infection and Replication Cycle","volume":"75","author":"A Madrahimov","year":"2013","journal-title":"Bull Math Biol"}],"container-title":["PLOS Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pcbi.1004131","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2018,10,23]],"date-time":"2018-10-23T12:57:26Z","timestamp":1540299446000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1004131"}},"subtitle":[],"editor":[{"given":"Joanne A.","family":"Fox","sequence":"first","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2015,3,19]]},"references-count":29,"journal-issue":{"issue":"3","published-online":{"date-parts":[[2015,3,19]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pcbi.1004131","relation":{},"ISSN":["1553-7358"],"issn-type":[{"value":"1553-7358","type":"electronic"}],"subject":[],"published":{"date-parts":[[2015,3,19]]}}}