{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,27]],"date-time":"2026-02-27T16:09:54Z","timestamp":1772208594882,"version":"3.50.1"},"reference-count":67,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2017,5,16]],"date-time":"2017-05-16T00:00:00Z","timestamp":1494892800000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2017,5,16]],"date-time":"2017-05-16T00:00:00Z","timestamp":1494892800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"crossref","award":["P50GM076516, R01GM107264,R01NS095355"],"award-info":[{"award-number":["P50GM076516, R01GM107264,R01NS095355"]}],"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":["1DP2CA195763-01"],"award-info":[{"award-number":["1DP2CA195763-01"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","award":["DMS1161621, DMS1562176"],"award-info":[{"award-number":["DMS1161621, DMS1562176"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Syst Biol"],"published-print":{"date-parts":[[2017,12]]},"DOI":"10.1186\/s12918-017-0429-x","type":"journal-article","created":{"date-parts":[[2017,5,16]],"date-time":"2017-05-16T13:43:23Z","timestamp":1494942203000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":59,"title":["A mathematical model of mechanotransduction reveals how mechanical memory regulates mesenchymal stem cell fate decisions"],"prefix":"10.1186","volume":"11","author":[{"given":"Tao","family":"Peng","sequence":"first","affiliation":[]},{"given":"Linan","family":"Liu","sequence":"additional","affiliation":[]},{"given":"Adam L","family":"MacLean","sequence":"additional","affiliation":[]},{"given":"Chi Wut","family":"Wong","sequence":"additional","affiliation":[]},{"given":"Weian","family":"Zhao","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8804-3368","authenticated-orcid":false,"given":"Qing","family":"Nie","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2017,5,16]]},"reference":[{"key":"429_CR1","doi-asserted-by":"publisher","first-page":"677","DOI":"10.1016\/j.cell.2006.06.044","volume":"126","author":"AJ Engler","year":"2006","unstructured":"Engler AJ, Sen S, Sweeney HL, Discher DE. Matrix elasticity directs stem cell lineage specification. Cell. 2006;126:677\u201389.","journal-title":"Cell"},{"key":"429_CR2","doi-asserted-by":"publisher","first-page":"17","DOI":"10.1016\/j.stem.2009.06.016","volume":"5","author":"F Guilak","year":"2009","unstructured":"Guilak F, Cohen DM, Estes BT, Gimble JM, Liedtke W, Chen CS. Control of stem cell fate by physical interactions with the extracellular matrix. Cell Stem Cell. 2009;5:17\u201326.","journal-title":"Cell Stem Cell"},{"key":"429_CR3","doi-asserted-by":"publisher","first-page":"642","DOI":"10.1038\/nmat3339","volume":"11","author":"B Trappmann","year":"2012","unstructured":"Trappmann B, Gautrot JE, Connelly JT, Strange DGT, Li Y, Oyen ML, et al. Extracellular-matrix tethering regulates stem-cell fate. Nat Mater. 2012;11:642\u20139.","journal-title":"Nat Mater"},{"key":"429_CR4","doi-asserted-by":"publisher","first-page":"458","DOI":"10.1038\/nmat3586","volume":"12","author":"S Khetan","year":"2013","unstructured":"Khetan S, Guvendiren M, Legant WR, Cohen DM, Chen CS, Burdick JA. Degradation-mediated cellular traction directs stem cell fate in covalently crosslinked three-dimensional hydrogels. Nat Mater. 2013;12:458\u201365.","journal-title":"Nat Mater"},{"issue":"9","key":"429_CR5","doi-asserted-by":"publisher","first-page":"523","DOI":"10.1016\/j.tcb.2015.04.003","volume":"25","author":"IL Ivanovska","year":"2015","unstructured":"Ivanovska IL, Shin J-W, Swift J, Discher DE. Stem cell mechanobiology: diverse lessons from bone marrow. Trends Cell Biol. 2015;25(9):523\u201332.","journal-title":"Trends Cell Biol"},{"key":"429_CR6","doi-asserted-by":"publisher","first-page":"591","DOI":"10.1038\/nrm3416","volume":"13","author":"G Halder","year":"2012","unstructured":"Halder G, Dupont S, Piccolo S. Transduction of mechanical and cytoskeletal cues by YAP and TAZ. Nat Rev Mol Cell Biol. 2012;13:591\u2013600.","journal-title":"Nat Rev Mol Cell Biol"},{"key":"429_CR7","doi-asserted-by":"publisher","first-page":"979","DOI":"10.1038\/nmat4051","volume":"13","author":"JH Wen","year":"2014","unstructured":"Wen JH, Vincent LG, Fuhrmann A, Choi YS, Hribar KC, Taylor-Weiner H, et al. Interplay of matrix stiffness and protein tethering in stem cell differentiation. Nat Mater. 2014;13:979\u201387.","journal-title":"Nat Mater"},{"issue":"6","key":"429_CR8","doi-asserted-by":"publisher","first-page":"645","DOI":"10.1038\/nmat3889","volume":"13","author":"C Yang","year":"2014","unstructured":"Yang C, Tibbitt MW, Basta L, Anseth KS. Mechanical memory and dosing influence stem cell fate. Nat Mater. 2014;13(6):645\u201352.","journal-title":"Nat Mater"},{"key":"429_CR9","doi-asserted-by":"publisher","first-page":"422","DOI":"10.1039\/c2ib00150k","volume":"4","author":"F Rehfeldt","year":"2012","unstructured":"Rehfeldt F, Brown AEX, Raab M, Cai S, Zajac AL, Zemel A, et al. Hyaluronic acid matrices show matrix stiffness in 2D and 3D dictates cytoskeletal order and myosin-II phosphorylation within stem cells. Integr Biol. 2012;4:422\u201330.","journal-title":"Integr Biol"},{"key":"429_CR10","doi-asserted-by":"publisher","first-page":"378","DOI":"10.1167\/iovs.12-11007","volume":"54","author":"VK Raghunathan","year":"2013","unstructured":"Raghunathan VK, Morgan JT, Dreier B, Reilly CM, Thomasy SM, Wood JA, et al. Role of substratum stiffness in modulating genes associated with extracellular matrix and mechanotransducers YAP and TAZ. Invest Ophthalmol Vis Sci. 2013;54:378\u201386.","journal-title":"Invest Ophthalmol Vis Sci"},{"key":"429_CR11","doi-asserted-by":"publisher","first-page":"157","DOI":"10.1016\/j.cell.2014.06.013","volume":"158","author":"L Azzolin","year":"2014","unstructured":"Azzolin L, Panciera T, Soligo S, Enzo E, Bicciato S, Dupont S, et al. YAP\/TAZ incorporation in the \u03b2-Catenin destruction complex orchestrates the Wnt response. Cell. 2014;158:157\u201370.","journal-title":"Cell"},{"issue":"7","key":"429_CR12","doi-asserted-by":"publisher","first-page":"e40737","DOI":"10.1371\/journal.pone.0040737","volume":"7","author":"DP Burke","year":"2012","unstructured":"Burke DP, Kelly DJ. Substrate stiffness and oxygen as regulators of stem cell differentiation during skeletal tissue regeneration: a mechanobiological model. PLoS ONE. 2012;7(7):e40737.","journal-title":"PLoS ONE"},{"key":"429_CR13","doi-asserted-by":"publisher","first-page":"e0124529","DOI":"10.1371\/journal.pone.0124529","volume":"10","author":"SJ Mousavi","year":"2015","unstructured":"Mousavi SJ, Doweidar MH. Role of mechanical cues in cell differentiation and proliferation: a 3D numerical model. PLoS ONE. 2015;10:e0124529.","journal-title":"PLoS ONE"},{"key":"429_CR14","doi-asserted-by":"publisher","first-page":"2540","DOI":"10.1016\/j.bpj.2016.04.040","volume":"110","author":"M Sun","year":"2016","unstructured":"Sun M, Spill F, Zaman MH. A computational model of YAP\/TAZ mechanosensing. Biophys J. 2016;110:2540\u201350.","journal-title":"Biophys J"},{"key":"429_CR15","first-page":"359","volume":"8","author":"K-T Kang","year":"2011","unstructured":"Kang K-T, Park J-H, Kim H-J, Lee H-M, Lee K-I, Jung H-H, et al. Study on differentiation of mesenchymal stem cells by mechanical stimuli and an algorithm for bone fracture healing. Tissue Eng Regen Med. 2011;8:359\u201370.","journal-title":"Tissue Eng Regen Med"},{"key":"429_CR16","doi-asserted-by":"publisher","first-page":"618","DOI":"10.1016\/j.jbiomech.2009.10.037","volume":"43","author":"AJF Stops","year":"2010","unstructured":"Stops AJF, Heraty KB, Browne M, O\u2019Brien FJ, McHugh PE. A prediction of cell differentiation and proliferation within a collagen\u2013glycosaminoglycan scaffold subjected to mechanical strain and perfusive fluid flow. J Biomech. 2010;43:618\u201326.","journal-title":"J Biomech"},{"key":"429_CR17","doi-asserted-by":"publisher","first-page":"519","DOI":"10.1146\/annurev-biophys-042910-155306","volume":"41","author":"Y Sun","year":"2012","unstructured":"Sun Y, Chen CS, Fu J. Forcing stem cells to behave: a biophysical perspective of the cellular microenvironment. Annu Rev Biophys. 2012;41:519\u201342.","journal-title":"Annu Rev Biophys"},{"key":"429_CR18","doi-asserted-by":"publisher","first-page":"179","DOI":"10.1038\/nature10137","volume":"474","author":"S Dupont","year":"2011","unstructured":"Dupont S, Morsut L, Aragona M, Enzo E, Giulitti S, Cordenonsi M, et al. Role of YAP\/TAZ in mechanotransduction. Nature. 2011;474:179\u201383.","journal-title":"Nature"},{"key":"429_CR19","doi-asserted-by":"publisher","first-page":"1240104","DOI":"10.1126\/science.1240104","volume":"341","author":"J Swift","year":"2013","unstructured":"Swift J, Ivanovska IL, Buxboim A, Harada T, Dingal PCDP, Pinter J, et al. Nuclear lamin-A scales with tissue stiffness and enhances matrix-directed differentiation. Science. 2013;341:1240104\u20134.","journal-title":"Science"},{"key":"429_CR20","doi-asserted-by":"publisher","first-page":"1074","DOI":"10.1126\/science.1110955","volume":"309","author":"JH Hong","year":"2005","unstructured":"Hong JH, Hwang ES, McManus MT, Amsterdam A, Tian Y, Kalmukova R, et al. TAZ, a transcriptional modulator of mesenchymal stem cell differentiation. Science. 2005;309:1074\u20138.","journal-title":"Science"},{"key":"429_CR21","doi-asserted-by":"publisher","first-page":"176","DOI":"10.4161\/cc.5.2.2362","volume":"5","author":"JH Hong","year":"2006","unstructured":"Hong JH, Yaffe MB. TAZ - A beta-catenin-like molecule that regulates mesenchymal stem cell differentiation. Cell Cycle. 2006;5:176\u20139.","journal-title":"Cell Cycle"},{"key":"429_CR22","doi-asserted-by":"publisher","first-page":"349","DOI":"10.1038\/nature01660","volume":"423","author":"S Harada","year":"2003","unstructured":"Harada S, Rodan GA. Control of osteoblast function and regulation of bone mass. Nature. 2003;423:349\u201355.","journal-title":"Nature"},{"key":"429_CR23","doi-asserted-by":"publisher","first-page":"219","DOI":"10.1097\/MAT.0b013e31802deb2d","volume":"53","author":"G Yourek","year":"2007","unstructured":"Yourek G, Hussain MA, Mao JJ. Cytoskeletal changes of mesenchymal stem cells during differentiation. ASAIO J. 2007;53:219\u201328.","journal-title":"ASAIO J"},{"key":"429_CR24","doi-asserted-by":"publisher","first-page":"4872","DOI":"10.1073\/pnas.0903269107","volume":"107","author":"KA Kilian","year":"2010","unstructured":"Kilian KA, Bugarija B, Lahn BT, Mrksich M. Geometric cues for directing the differentiation of mesenchymal stem cells. Proc Natl Acad Sci. 2010;107:4872\u20137.","journal-title":"Proc Natl Acad Sci"},{"key":"429_CR25","doi-asserted-by":"publisher","first-page":"15015","DOI":"10.1038\/boneres.2015.15","volume":"3","author":"E Maharam","year":"2015","unstructured":"Maharam E, Yaport M, Villanueva NL, Akinyibi T, Laudier D, He Z, et al. Rho\/Rock signal transduction pathway is required for MSC tenogenic differentiation. Bone Res. 2015;3:15015.","journal-title":"Bone Res"},{"key":"429_CR26","doi-asserted-by":"publisher","first-page":"e55082","DOI":"10.1371\/journal.pone.0055082","volume":"8","author":"F Matsuoka","year":"2013","unstructured":"Matsuoka F, Takeuchi I, Agata H, Kagami H, Shiono H, Kiyota Y, et al. Morphology-based prediction of osteogenic differentiation potential of human mesenchymal stem cells. PLoS ONE. 2013;8:e55082.","journal-title":"PLoS ONE"},{"key":"429_CR27","first-page":"66","volume":"6","author":"IA Rogov","year":"2012","unstructured":"Rogov IA, Volkova IM, Kuleshov KV, Savchenkova IP. in vitro myogenic differentiation of bovine multipotent mesenchymal stem cells taken from bone marrow and adipose tissue. Agricult Biol. 2012;6:66\u201372.","journal-title":"Agricult Biol"},{"key":"429_CR28","doi-asserted-by":"publisher","first-page":"951","DOI":"10.1038\/nmat4350","volume":"14","author":"PCDP Dingal","year":"2015","unstructured":"Dingal PCDP, Bradshaw AM, Cho S, Raab M, Buxboim A, Swift J, et al. Fractal heterogeneity in minimal matrix models of scars modulates stiff-niche stem-cell responses via nuclear exit of a mechanorepressor. Nat Mater. 2015;14:951\u201360.","journal-title":"Nat Mater"},{"issue":"8","key":"429_CR29","doi-asserted-by":"publisher","first-page":"e1003781","DOI":"10.1371\/journal.pcbi.1003781","volume":"10","author":"M Adler","year":"2014","unstructured":"Adler M, Mayo A, Alon U. Logarithmic and power law input-output relations in sensory systems with fold-change detection. PLoS Comput Biol. 2014;10(8):e1003781.","journal-title":"PLoS Comput Biol"},{"key":"429_CR30","doi-asserted-by":"publisher","first-page":"484","DOI":"10.1109\/JBHI.2013.2281774","volume":"18","author":"T Peng","year":"2013","unstructured":"Peng T, Peng H, Choi D, Su J, Chang C-C, Zhou X. Modeling cell-cell interactions in regulating multiple myeloma initiating cell fate. IEEE J Biomed Health Inform. 2013;18:484\u201391.","journal-title":"IEEE J Biomed Health Inform"},{"key":"429_CR31","doi-asserted-by":"publisher","first-page":"247","DOI":"10.1006\/bulm.1999.0155","volume":"62","author":"P Smolen","year":"2000","unstructured":"Smolen P. Modeling transcriptional control in gene networks\u2014methods, recent results, and future directions. Bull Math Biol. 2000;62:247\u201392.","journal-title":"Bull Math Biol"},{"key":"429_CR32","doi-asserted-by":"publisher","first-page":"317","DOI":"10.1016\/j.ydbio.2008.10.043","volume":"325","author":"S Ben-Tabou de-Leon","year":"2009","unstructured":"Ben-Tabou de-Leon S, Davidson EH. Modeling the dynamics of transcriptional gene regulatory networks for animal development. Dev Biol. 2009;325:317\u201328.","journal-title":"Dev Biol"},{"key":"429_CR33","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/s13287-015-0083-4","volume":"6","author":"H Lv","year":"2015","unstructured":"Lv H, Li L, Sun M, Zhang Y, Chen L, Rong Y, et al. Mechanism of regulation of stem cell differentiation by matrix stiffness. Stem Cell Res Ther. 2015;6:1.","journal-title":"Stem Cell Res Ther"},{"key":"429_CR34","doi-asserted-by":"publisher","first-page":"427","DOI":"10.1007\/s00407-012-0098-5","volume":"66","author":"R Gesztelyi","year":"2012","unstructured":"Gesztelyi R, Zsuga J, Kemeny-Beke A, Varga B, Juhasz B, Tosaki A. The Hill equation and the origin of quantitative pharmacology. Arch Hist Exact Sci. 2012;66:427\u201338.","journal-title":"Arch Hist Exact Sci"},{"key":"429_CR35","doi-asserted-by":"publisher","first-page":"1078","DOI":"10.1126\/science.1191035","volume":"329","author":"PM Gilbert","year":"2010","unstructured":"Gilbert PM, Havenstrite KL, Magnusson KEG, Sacco A, Leonardi NA, Kraft P, et al. Substrate elasticity regulates skeletal muscle stem cell self-renewal in culture. Science. 2010;329:1078\u201381.","journal-title":"Science"},{"key":"429_CR36","doi-asserted-by":"publisher","first-page":"3945","DOI":"10.1016\/j.biomaterials.2014.01.066","volume":"35","author":"D Lu","year":"2014","unstructured":"Lu D, Luo C, Zhang C, Li Z, Long M. Differential regulation of morphology and stemness of mouse embryonic stem cells by substrate stiffness and topography. Biomaterials. 2014;35:3945\u201355.","journal-title":"Biomaterials"},{"key":"429_CR37","doi-asserted-by":"publisher","first-page":"199","DOI":"10.1002\/mabi.201500273","volume":"16","author":"B Choi","year":"2016","unstructured":"Choi B, Park KS, Kim JH, Ko KW, Kim JS, Han DK, et al. Stiffness of hydrogels regulates cellular reprogramming efficiency through mesenchymal-to-epithelial transition and stemness markers. Macromol Biosci. 2016;16:199\u2013206.","journal-title":"Macromol Biosci"},{"key":"429_CR38","doi-asserted-by":"publisher","first-page":"8257","DOI":"10.1073\/pnas.1017017108","volume":"108","author":"J Wang","year":"2011","unstructured":"Wang J, Zhang K, Xu L, Wang E. Quantifying the waddington landscape and biological paths for development and differentiation. Proc Natl Acad Sci. 2011;108:8257\u201362.","journal-title":"Proc Natl Acad Sci"},{"key":"429_CR39","doi-asserted-by":"crossref","unstructured":"Baker WL. A review of models of landscape change. Landscape Ecol. Kluwer Academic Publishers; 1989;2:111-33.","DOI":"10.1007\/BF00137155"},{"key":"429_CR40","doi-asserted-by":"publisher","first-page":"12271","DOI":"10.1073\/pnas.0800579105","volume":"105","author":"J Wang","year":"2008","unstructured":"Wang J, Xu L, Wang E. Potential landscape and flux framework of nonequilibrium networks: robustness, dissipation, and coherence of biochemical oscillations. Proc Natl Acad Sci. 2008;105:12271\u20136.","journal-title":"Proc Natl Acad Sci"},{"key":"429_CR41","doi-asserted-by":"publisher","first-page":"8195","DOI":"10.1073\/pnas.0910331107","volume":"107","author":"J Wang","year":"2010","unstructured":"Wang J, Li C, Wang E. Potential and flux landscapes quantify the stability and robustness of budding yeast cell cycle network. Proc Natl Acad Sci. 2010;107:8195\u2013200.","journal-title":"Proc Natl Acad Sci"},{"key":"429_CR42","doi-asserted-by":"publisher","first-page":"547","DOI":"10.1038\/nmat3937","volume":"13","author":"WL Murphy","year":"2014","unstructured":"Murphy WL, McDevitt TC, Engler AJ. Materials as stem cell regulators. Nat Mater. 2014;13:547\u201357.","journal-title":"Nat Mater"},{"key":"429_CR43","doi-asserted-by":"publisher","first-page":"1183","DOI":"10.1126\/science.1070919","volume":"297","author":"MB Elowitz","year":"2002","unstructured":"Elowitz MB, Levine AJ, Siggia ED, Swain PS. Stochastic gene expression in a single cell. Science. 2002;297:1183\u20136.","journal-title":"Science"},{"key":"429_CR44","doi-asserted-by":"publisher","first-page":"221","DOI":"10.1016\/j.tig.2012.01.006","volume":"28","author":"G Chalancon","year":"2012","unstructured":"Chalancon G, Ravarani CNJ, Balaji S, Martinez-Arias A, Aravind L, Jothi R, et al. Interplay between gene expression noise and regulatory network architecture. Trends Genet. 2012;28:221\u201332.","journal-title":"Trends Genet"},{"key":"429_CR45","doi-asserted-by":"publisher","first-page":"587","DOI":"10.1021\/sb400044g","volume":"2","author":"M Chen","year":"2013","unstructured":"Chen M, Wang L, Liu CC, Nie Q. Noise attenuation in the ON and OFF states of biological switches. ACS Synth Biol. 2013;2:587\u201393.","journal-title":"ACS Synth Biol"},{"key":"429_CR46","doi-asserted-by":"publisher","first-page":"1528","DOI":"10.1016\/j.bpj.2014.02.010","volume":"106","author":"WR Holmes","year":"2014","unstructured":"Holmes WR, Nie Q. Interactions and tradeoffs between cell recruitment, proliferation, and differentiation affect CNS regeneration. Biophys J. 2014;106:1528\u201336.","journal-title":"Biophys J"},{"key":"429_CR47","doi-asserted-by":"publisher","first-page":"165","DOI":"10.1242\/dmm.004077","volume":"4","author":"TR Cox","year":"2011","unstructured":"Cox TR, Erler JT. Remodeling and homeostasis of the extracellular matrix: implications for fibrotic diseases and cancer. Dis Model Mech. 2011;4:165\u201378.","journal-title":"Dis Model Mech"},{"key":"429_CR48","doi-asserted-by":"publisher","first-page":"728","DOI":"10.1016\/j.biocel.2012.02.003","volume":"44","author":"MG Mendez","year":"2012","unstructured":"Mendez MG, Janmey PA. Transcription factor regulation by mechanical stress. Int J Biochem Cell Biol. 2012;44:728\u201332.","journal-title":"Int J Biochem Cell Biol"},{"key":"429_CR49","doi-asserted-by":"publisher","first-page":"241","DOI":"10.1016\/j.ccr.2005.08.010","volume":"8","author":"MJ Paszek","year":"2005","unstructured":"Paszek MJ, Zahir N, Johnson KR, Lakins JN, Rozenberg GI, Gefen A, et al. Tensional homeostasis and the malignant phenotype. Cancer Cell. 2005;8:241\u201354.","journal-title":"Cancer Cell"},{"key":"429_CR50","doi-asserted-by":"publisher","first-page":"891","DOI":"10.1016\/j.cell.2009.10.027","volume":"139","author":"KR Levental","year":"2009","unstructured":"Levental KR, Yu H, Kass L, Lakins JN, Egeblad M, Erler JT, et al. Matrix crosslinking forces tumor progression by enhancing integrin signaling. Cell. 2009;139:891\u2013906.","journal-title":"Cell"},{"key":"429_CR51","first-page":"2506","volume":"2014","author":"F Gattazzo","year":"1840","unstructured":"Gattazzo F, Urciuolo A, Bonaldo P. Extracellular matrix: a dynamic microenvironment for stem cell niche. Biochim Biophys Acta. 1840;2014:2506\u201319.","journal-title":"Biochim Biophys Acta"},{"key":"429_CR52","doi-asserted-by":"publisher","first-page":"37","DOI":"10.1007\/s12154-009-0029-3","volume":"3","author":"H Prinz","year":"2010","unstructured":"Prinz H. Hill coefficients, dose\u2013response curves and allosteric mechanisms. J Chem Biol. 2010;3:37\u201344.","journal-title":"J Chem Biol"},{"key":"429_CR53","unstructured":"Ingalls B. Mathematical modelling in systems biology: an introduction. 2013."},{"key":"429_CR54","volume-title":"Numerical continuation methods: an introduction","author":"EL Allgower","year":"2012","unstructured":"Allgower EL, Georg K. Numerical continuation methods: an introduction. 2012."},{"key":"429_CR55","doi-asserted-by":"publisher","first-page":"147","DOI":"10.1080\/13873950701742754","volume":"14","author":"A Dhooge","year":"2008","unstructured":"Dhooge A, Govaerts W, Kuznetsov YA, Meijer HGE, Sautois B. New features of the software MatCont for bifurcation analysis of dynamical systems. Math Comput Model Dyn Syst. 2008;14:147\u201375.","journal-title":"Math Comput Model Dyn Syst"},{"key":"429_CR56","doi-asserted-by":"publisher","first-page":"2672","DOI":"10.1073\/pnas.1519210113","volume":"113","author":"Q Li","year":"2016","unstructured":"Li Q, Wennborg A, Aurell E, Dekel E, Zou J-Z, Xu Y, et al. Dynamics inside the cancer cell attractor reveal cell heterogeneity, limits of stability, and escape. Proc Natl Acad Sci. 2016;113:2672\u20137.","journal-title":"Proc Natl Acad Sci"},{"key":"429_CR57","volume-title":"Stochastic processes in physics and chemistry","author":"NG van Kampen","year":"1985","unstructured":"van Kampen NG. Stochastic processes in physics and chemistry. 1985."},{"key":"429_CR58","doi-asserted-by":"publisher","first-page":"e1003165","DOI":"10.1371\/journal.pcbi.1003165","volume":"9","author":"C Li","year":"2013","unstructured":"Li C, Wang J. Quantifying cell fate decisions for differentiation and reprogramming of a human stem cell network: landscape and biological paths. PLoS Comput Biol. 2013;9:e1003165.","journal-title":"PLoS Comput Biol"},{"key":"429_CR59","doi-asserted-by":"publisher","first-page":"2374","DOI":"10.1073\/pnas.2627987100","volume":"100","author":"M Sasai","year":"2003","unstructured":"Sasai M, Wolynes PG. Stochastic gene expression as a many-body problem. Proc Natl Acad Sci. 2003;100:2374\u20139.","journal-title":"Proc Natl Acad Sci"},{"key":"429_CR60","volume-title":"Stochastic forces and nonlinear systems","author":"G Hu","year":"1994","unstructured":"Hu G. Stochastic forces and nonlinear systems. 1994."},{"key":"429_CR61","doi-asserted-by":"publisher","first-page":"14130","DOI":"10.1073\/pnas.1408628111","volume":"111","author":"C Li","year":"2014","unstructured":"Li C, Wang J. Landscape and flux reveal a new global view and physical quantification of mammalian cell cycle. Proc Natl Acad Sci. 2014;111:14130\u20135.","journal-title":"Proc Natl Acad Sci"},{"issue":"6","key":"429_CR62","doi-asserted-by":"publisher","first-page":"229","DOI":"10.1021\/sb300020f","volume":"1","author":"C Li","year":"2012","unstructured":"Li C, Wang E, Wang J. Landscape topography determines global stability and robustness of a metabolic network. ACS Synth Biol. 2012;1(6):229\u201339.","journal-title":"ACS Synth Biol"},{"key":"429_CR63","volume-title":"Modeling with It\u00f4 stochastic differential equations","author":"E Allen","year":"2007","unstructured":"Allen E. Modeling with It\u00f4 stochastic differential equations. 2007."},{"key":"429_CR64","doi-asserted-by":"publisher","first-page":"483","DOI":"10.1016\/S1534-5807(04)00075-9","volume":"6","author":"R McBeath","year":"2004","unstructured":"McBeath R, Pirone DM, Nelson CM, Bhadriraju K, Chen CS. Cell shape, cytoskeletal tension, and RhoA regulate stem cell lineage commitment. Dev Cell. 2004;6:483\u201395.","journal-title":"Dev Cell"},{"key":"429_CR65","doi-asserted-by":"publisher","first-page":"757","DOI":"10.1016\/j.cell.2009.09.035","volume":"139","author":"C Alarc\u00f3n","year":"2009","unstructured":"Alarc\u00f3n C, Zaromytidou A-I, Xi Q, Gao S, Yu J, Fujisawa S, et al. Nuclear CDKs drive smad transcriptional activation and turnover in BMP and TGF-\u03b2 pathways. Cell. 2009;139:757\u201369.","journal-title":"Cell"},{"key":"429_CR66","doi-asserted-by":"publisher","first-page":"3310","DOI":"10.1096\/fj.09-151324","volume":"24","author":"H Jeong","year":"2010","unstructured":"Jeong H, Bae S, An SY, Byun MR, Hwang J-H, Yaffe MB, et al. TAZ as a novel enhancer of MyoD-mediated myogenic differentiation. FASEB J. 2010;24:3310\u201320.","journal-title":"FASEB J"},{"key":"429_CR67","doi-asserted-by":"publisher","first-page":"844","DOI":"10.1039\/C6IB00093B","volume":"8","author":"BP Bernab\u00e9","year":"2016","unstructured":"Bernab\u00e9 BP, Shin S, Rios PD, Broadbelt LJ, Shea LD, Seidlits SK. Dynamic transcription factor activity networks in response to independently altered mechanical and adhesive microenvironmental cues. Integr Biol. 2016;8:844\u201360.","journal-title":"Integr Biol"}],"container-title":["BMC Systems Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s12918-017-0429-x.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/s12918-017-0429-x\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s12918-017-0429-x.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,5,15]],"date-time":"2020-05-15T10:46:23Z","timestamp":1589539583000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcsystbiol.biomedcentral.com\/articles\/10.1186\/s12918-017-0429-x"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017,5,16]]},"references-count":67,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2017,12]]}},"alternative-id":["429"],"URL":"https:\/\/doi.org\/10.1186\/s12918-017-0429-x","relation":{},"ISSN":["1752-0509"],"issn-type":[{"value":"1752-0509","type":"electronic"}],"subject":[],"published":{"date-parts":[[2017,5,16]]},"assertion":[{"value":"24 November 2016","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"26 April 2017","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"16 May 2017","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"55"}}