{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,3,26]],"date-time":"2025-03-26T19:44:52Z","timestamp":1743018292487,"version":"3.40.3"},"publisher-location":"Cham","reference-count":36,"publisher":"Springer International Publishing","isbn-type":[{"type":"print","value":"9783319786575"},{"type":"electronic","value":"9783319786582"}],"license":[{"start":{"date-parts":[[2018,1,1]],"date-time":"2018-01-01T00:00:00Z","timestamp":1514764800000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018]]},"DOI":"10.1007\/978-3-319-78658-2_13","type":"book-chapter","created":{"date-parts":[[2018,3,31]],"date-time":"2018-03-31T14:34:11Z","timestamp":1522506851000},"page":"165-180","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":4,"title":["An Integrated Model Quantitatively Describing Metabolism, Growth and Cell Cycle in Budding Yeast"],"prefix":"10.1007","author":[{"given":"Pasquale","family":"Palumbo","sequence":"first","affiliation":[]},{"given":"Marco","family":"Vanoni","sequence":"additional","affiliation":[]},{"given":"Federico","family":"Papa","sequence":"additional","affiliation":[]},{"given":"Stefano","family":"Busti","sequence":"additional","affiliation":[]},{"given":"Meike","family":"Wortel","sequence":"additional","affiliation":[]},{"given":"Bas","family":"Teusink","sequence":"additional","affiliation":[]},{"given":"Lilia","family":"Alberghina","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2018,4,1]]},"reference":[{"key":"13_CR1","doi-asserted-by":"crossref","first-page":"846","DOI":"10.1039\/C5IB00083A","volume":"7","author":"BJ S\u00e1nchez","year":"2015","unstructured":"S\u00e1nchez, B.J., Nielsen, J.: Genome scale models of yeast: towards standardized evaluation and consistent omic integration. Integr. Biol. (Camb) 7, 846\u2013858 (2015)","journal-title":"Integr. Biol. (Camb)"},{"key":"13_CR2","doi-asserted-by":"crossref","first-page":"695","DOI":"10.1534\/genetics.111.130765","volume":"189","author":"D Botstein","year":"2011","unstructured":"Botstein, D., Fink, G.R.: Yeast: an experimental organism for 21st Century biology. Genetics 189, 695\u2013704 (2011)","journal-title":"Genetics"},{"key":"13_CR3","doi-asserted-by":"crossref","first-page":"389","DOI":"10.1016\/j.cell.2012.05.044","volume":"150","author":"JR Karr","year":"2012","unstructured":"Karr, J.R., Sanghvi, J.C., Macklin, D.N., Gutschow, M.V., Jacobs, J.M., Bolival, B., Assad-Garcia, N., Glass, J.I., Covert, M.W.: A whole-cell computational model predicts phenotype from genotype. Cell 150, 389\u2013401 (2012)","journal-title":"Cell"},{"issue":"546","key":"13_CR4","first-page":"563","volume":"274","author":"A Goffeau","year":"1996","unstructured":"Goffeau, A., Barrell, B.G., Bussey, H., Davis, R.W., Dujon, B., Feldmann, H., Galibert, F., Hoheisel, J.D., Jacq, C., Johnston, M., Louis, E.J., Mewes, H.W., Murakami, Y., Philippsen, P., Tettelin, H., Oliver, S.G.: Life with 6000 genes. Science 274(546), 563\u2013567 (1996)","journal-title":"Science"},{"key":"13_CR5","doi-asserted-by":"crossref","first-page":"254","DOI":"10.1111\/1574-6976.12065","volume":"38","author":"M Conrad","year":"2014","unstructured":"Conrad, M., Schothorst, J., Kankipati, H.N., Van Zeebroeck, G., Rubio-Texeira, M., Thevelein, J.M.: Nutrient sensing and signaling in the yeast Saccharomyces cerevisiae. FEMS Microbiol. Rev. 38, 254\u2013299 (2014)","journal-title":"FEMS Microbiol. Rev."},{"key":"13_CR6","doi-asserted-by":"crossref","first-page":"111","DOI":"10.1016\/j.copbio.2014.01.012","volume":"28","author":"DN Macklin","year":"2014","unstructured":"Macklin, D.N., Ruggero, N.A., Covert, M.W.: The future of whole-cell modeling. Curr. Opin. Biotechnol. 28, 111\u2013115 (2014)","journal-title":"Curr. Opin. Biotechnol."},{"key":"13_CR7","doi-asserted-by":"crossref","first-page":"323","DOI":"10.1038\/msb.2009.82","volume":"5","author":"D Molenaar","year":"2009","unstructured":"Molenaar, D., van Berlo, R., de Ridder, D., Teusink, B.: Shifts in growth strategies reflect tradeoffs in cellular economics. Mol. Syst. Biol. 5, 323 (2009)","journal-title":"Mol. Syst. Biol."},{"key":"13_CR8","doi-asserted-by":"crossref","first-page":"87","DOI":"10.1186\/1752-0509-2-87","volume":"2","author":"T Haar von der","year":"2008","unstructured":"von der Haar, T.: A quantitative estimation of the global translational activity in logarithmically growing yeast cells. BMC Syst. Biol. 2, 87 (2008)","journal-title":"BMC Syst. Biol."},{"key":"13_CR9","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1016\/0014-5793(74)80323-6","volume":"46","author":"C Waldron","year":"1974","unstructured":"Waldron, C., Jund, R., Lacroute, F.: The elongation rate of proteins of different molecular weight classes in yeast. FEBS Lett. 46, 11\u201316 (1974)","journal-title":"FEBS Lett."},{"key":"13_CR10","doi-asserted-by":"crossref","first-page":"429","DOI":"10.1128\/JB.121.2.429-433.1975","volume":"121","author":"KW Boehlke","year":"1975","unstructured":"Boehlke, K.W., Friesen, J.D.: Cellular content of ribonucleic acid and protein in Saccharomyces cerevisiae as a function of exponential growth rate: calculation of the apparent peptide chain elongation rate. J. Bacteriol. 121, 429\u2013433 (1975)","journal-title":"J. Bacteriol."},{"key":"13_CR11","doi-asserted-by":"crossref","first-page":"855","DOI":"10.1128\/JB.122.3.855-865.1975","volume":"122","author":"C Waldron","year":"1975","unstructured":"Waldron, C., Lacroute, F.: Effect of growth rate on the amounts of ribosomal and transfer ribonucleic acids in yeast. J. Bacteriol. 122, 855\u2013865 (1975)","journal-title":"J. Bacteriol."},{"key":"13_CR12","doi-asserted-by":"crossref","first-page":"29503","DOI":"10.1038\/srep29503","volume":"6","author":"MT Wortel","year":"2016","unstructured":"Wortel, M.T., Bosdriesz, E., Teusink, B., Bruggeman, F.J.: Evolutionary pressures on microbial metabolic strategies in the chemostat. Sci. Rep. 6, 29503 (2016)","journal-title":"Sci. Rep."},{"key":"13_CR13","doi-asserted-by":"crossref","first-page":"4226","DOI":"10.1128\/AEM.64.11.4226-4233.1998","volume":"64","author":"P Hoek Van","year":"1998","unstructured":"Van Hoek, P., Van Dijken, J.P., Pronk, J.T.: Effect of specific growth rate on fermentative capacity of baker\u2019s yeast. Appl. Environ. Microbiol. 64, 4226\u20134233 (1998)","journal-title":"Appl. Environ. Microbiol."},{"key":"13_CR14","doi-asserted-by":"crossref","first-page":"52","DOI":"10.1016\/j.biotechadv.2011.07.010","volume":"30","author":"L Alberghina","year":"2012","unstructured":"Alberghina, L., Mavelli, G., Drovandi, G., Palumbo, P., Pessina, S., Tripodi, F., Coccetti, P., Vanoni, M.: Cell growth and cell cycle in Saccharomyces cerevisiae: basic regulatory design and protein-protein interaction network. Biotechnol. Adv. 30, 52\u201372 (2012)","journal-title":"Biotechnol. Adv."},{"key":"13_CR15","doi-asserted-by":"crossref","first-page":"114","DOI":"10.1002\/cyto.a.20689","volume":"75","author":"D Porro","year":"2009","unstructured":"Porro, D., Vai, M., Vanoni, M., Alberghina, L., Hatzis, C.: Analysis and modeling of growing budding yeast populations at the single cell level. Cytom Part J. Int. Soc. Anal. Cytol. 75, 114\u2013120 (2009)","journal-title":"Cytom Part J. Int. Soc. Anal. Cytol."},{"key":"13_CR16","doi-asserted-by":"crossref","first-page":"165","DOI":"10.1016\/S0378-1097(03)00815-2","volume":"229","author":"D Porro","year":"2003","unstructured":"Porro, D., Brambilla, L., Alberghina, L.: Glucose metabolism and cell size in continuous cultures of Saccharomyces cerevisiae. FEMS Microbiol. Lett. 229, 165\u2013171 (2003)","journal-title":"FEMS Microbiol. Lett."},{"key":"13_CR17","doi-asserted-by":"crossref","first-page":"23","DOI":"10.1016\/0303-2647(86)90032-8","volume":"19","author":"L Alberghina","year":"1986","unstructured":"Alberghina, L., Mariani, L., Martegani, E.: Cell cycle modelling. Biosystems 19, 23\u201344 (1986)","journal-title":"Biosystems"},{"key":"13_CR18","doi-asserted-by":"crossref","first-page":"947","DOI":"10.1038\/nature06072","volume":"448","author":"S Talia Di","year":"2007","unstructured":"Di Talia, S., Skotheim, J.M., Bean, J.M., Siggia, E.D., Cross, F.R.: The effects of molecular noise and size control on variability in the budding yeast cell cycle. Nature 448, 947\u2013951 (2007)","journal-title":"Nature"},{"key":"13_CR19","doi-asserted-by":"crossref","first-page":"422","DOI":"10.1083\/jcb.75.2.422","volume":"75","author":"LH Hartwell","year":"1977","unstructured":"Hartwell, L.H., Unger, M.W.: Unequal division in Saccharomyces cerevisiae and its implications for the control of cell division. J. Cell Biol. 75, 422\u2013435 (1977)","journal-title":"J. Cell Biol."},{"key":"13_CR20","doi-asserted-by":"crossref","unstructured":"Palumbo, P., Vanoni, M., Cusimano, V., Busti, S., Marano, F., Manes, C., Alberghina, L.: Whi5 phosphorylation embedded in the G1\/S network dynamically controls critical cell size and cell fate. Nat. Commun. 7, ncomms11372 (2016)","DOI":"10.1038\/ncomms11372"},{"key":"13_CR21","doi-asserted-by":"crossref","first-page":"3523","DOI":"10.1091\/mbc.E06-10-0973","volume":"18","author":"P Jorgensen","year":"2007","unstructured":"Jorgensen, P., Edgington, N.P., Schneider, B.L., Rupes, I., Tyers, M., Futcher, B.: The size of the nucleus increases as yeast cells grow. Mol. Biol. Cell 18, 3523\u20133532 (2007)","journal-title":"Mol. Biol. Cell"},{"key":"13_CR22","doi-asserted-by":"crossref","first-page":"433","DOI":"10.1083\/jcb.200405102","volume":"167","author":"L Alberghina","year":"2004","unstructured":"Alberghina, L., Rossi, R.L., Querin, L., Wanke, V., Vanoni, M.: A cell sizer network involving Cln3 and Far1 controls entrance into S phase in the mitotic cycle of budding yeast. J. Cell Biol. 167, 433\u2013443 (2004)","journal-title":"J. Cell Biol."},{"key":"13_CR23","doi-asserted-by":"crossref","first-page":"21","DOI":"10.1083\/jcb.200307025","volume":"163","author":"X Fu","year":"2003","unstructured":"Fu, X., Ng, C., Feng, D., Liang, C.: Cdc48p is required for the cell cycle commitment point at Start via degradation of the G1-CDK inhibitor Far1p. J. Cell Biol. 163, 21 (2003)","journal-title":"J. Cell Biol."},{"key":"13_CR24","doi-asserted-by":"crossref","first-page":"833","DOI":"10.1101\/gad.7.5.833","volume":"7","author":"JD McKinney","year":"1993","unstructured":"McKinney, J.D., Chang, F., Heintz, N., Cross, F.R.: Negative regulation of FAR1 at the Start of the yeast cell cycle. Genes Dev. 7, 833\u2013843 (1993)","journal-title":"Genes Dev."},{"key":"13_CR25","doi-asserted-by":"crossref","first-page":"445","DOI":"10.1091\/mbc.3.4.445","volume":"3","author":"F Chang","year":"1992","unstructured":"Chang, F., Herskowitz, I.: Phosphorylation of FAR1 in response to alpha-factor: a possible requirement for cell-cycle arrest. Mol. Biol. Cell 3, 445\u2013450 (1992)","journal-title":"Mol. Biol. Cell"},{"key":"13_CR26","doi-asserted-by":"crossref","first-page":"747","DOI":"10.1016\/0092-8674(93)90254-N","volume":"73","author":"M Peter","year":"1993","unstructured":"Peter, M., Gartner, A., Horecka, J., Ammerer, G., Herskowitz, I.: FAR1 links the signal transduction pathway to the cell cycle machinery in yeast. Cell 73, 747\u2013760 (1993)","journal-title":"Cell"},{"key":"13_CR27","doi-asserted-by":"crossref","first-page":"e64","DOI":"10.1371\/journal.pcbi.0030064","volume":"3","author":"M Barberis","year":"2007","unstructured":"Barberis, M., Klipp, E., Vanoni, M., Alberghina, L.: Cell size at S Phase Initiation: An Emergent Property of the G1\/S Network. PLoS Comput. Biol. 3, e64 (2007)","journal-title":"PLoS Comput. Biol."},{"key":"13_CR28","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1128\/JB.137.1.1-5.1979","volume":"137","author":"GC Johnston","year":"1979","unstructured":"Johnston, G.C., Ehrhardt, C.W., Lorincz, A., Carter, B.L.: Regulation of cell size in the yeast Saccharomyces cerevisiae. J. Bacteriol. 137, 1\u20135 (1979)","journal-title":"J. Bacteriol."},{"key":"13_CR29","doi-asserted-by":"crossref","first-page":"615","DOI":"10.2174\/1389202043348652","volume":"5","author":"L Alberghina","year":"2004","unstructured":"Alberghina, L., Vai, M., Vanoni, M.: Probing control mechanisms of cell cycle and ageing in budding yeast. Curr. Genomics 5, 615\u2013627 (2004)","journal-title":"Curr. Genomics"},{"key":"13_CR30","doi-asserted-by":"crossref","first-page":"1282","DOI":"10.1128\/JB.156.3.1282-1291.1983","volume":"156","author":"M Vanoni","year":"1983","unstructured":"Vanoni, M., Vai, M., Popolo, L., Alberghina, L.: Structural heterogeneity in populations of the budding yeast Saccharomyces cerevisiae. J. Bacteriol. 156, 1282\u20131291 (1983)","journal-title":"J. Bacteriol."},{"key":"13_CR31","doi-asserted-by":"crossref","first-page":"3841","DOI":"10.1091\/mbc.E03-11-0794","volume":"15","author":"KC Chen","year":"2004","unstructured":"Chen, K.C., Calzone, L., Csikasz-Nagy, A., Cross, F.R., Novak, B., Tyson, J.J.: Integrative analysis of cell cycle control in budding yeast. Mol. Biol. Cell 15, 3841\u20133862 (2004)","journal-title":"Mol. Biol. Cell"},{"key":"13_CR32","doi-asserted-by":"crossref","first-page":"415","DOI":"10.1038\/msb.2010.73","volume":"6","author":"K Kaizu","year":"2010","unstructured":"Kaizu, K., Ghosh, S., Matsuoka, Y., Moriya, H., Shimizu-Yoshida, Y., Kitano, H.: A comprehensive molecular interaction map of the budding yeast cell cycle. Mol. Syst. Biol. 6, 415 (2010)","journal-title":"Mol. Syst. Biol."},{"key":"13_CR33","doi-asserted-by":"crossref","first-page":"4213","DOI":"10.1111\/febs.12014","volume":"279","author":"TW Spiesser","year":"2012","unstructured":"Spiesser, T.W., M\u00fcller, C., Schreiber, G., Krantz, M., Klipp, E.: Size homeostasis can be intrinsic to growing cell populations and explained without size sensing or Signal. FEBS J. 279, 4213\u20134230 (2012)","journal-title":"FEBS J."},{"key":"13_CR34","doi-asserted-by":"crossref","first-page":"e1000783","DOI":"10.1371\/journal.pcbi.1000783","volume":"6","author":"A Br\u00fcmmer","year":"2010","unstructured":"Br\u00fcmmer, A., Salazar, C., Zinzalla, V., Alberghina, L., H\u00f6fer, T.: Mathematical modelling of DNA replication reveals a trade-off between coherence of origin activation and robustness against rereplication. PLoS Comput. Biol. 6, e1000783 (2010)","journal-title":"PLoS Comput. Biol."},{"key":"13_CR35","doi-asserted-by":"crossref","first-page":"108","DOI":"10.1016\/j.biotechadv.2011.09.004","volume":"30","author":"M Barberis","year":"2012","unstructured":"Barberis, M., Linke, C., Adrover, M.\u00c0., Gonz\u00e1lez-Novo, A., Lehrach, H., Krobitsch, S., Posas, F., Klipp, E.: Sic1 plays a role in timing and oscillatory behaviour of B-type cyclins. Biotechnol. Adv. 30, 108\u2013130 (2012)","journal-title":"Biotechnol. Adv."},{"key":"13_CR36","doi-asserted-by":"crossref","first-page":"310","DOI":"10.1038\/embor.2013.30","volume":"14","author":"T Swierstra","year":"2013","unstructured":"Swierstra, T., Vermeulen, N., Braeckman, J., van Driel, R.: Rethinking the life sciences. To better serve society, biomedical research has to regain its trust and get organized to tackle larger projects. EMBO Rep. 14, 310\u2013314 (2013)","journal-title":"EMBO Rep."}],"container-title":["Communications in Computer and Information Science","Artificial Life and Evolutionary Computation"],"original-title":[],"link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/978-3-319-78658-2_13","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,10,30]],"date-time":"2020-10-30T18:31:24Z","timestamp":1604082684000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/978-3-319-78658-2_13"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018]]},"ISBN":["9783319786575","9783319786582"],"references-count":36,"URL":"https:\/\/doi.org\/10.1007\/978-3-319-78658-2_13","relation":{},"ISSN":["1865-0929","1865-0937"],"issn-type":[{"type":"print","value":"1865-0929"},{"type":"electronic","value":"1865-0937"}],"subject":[],"published":{"date-parts":[[2018]]}}}