Michael A Savageau

Title(s)Professor Emeritus, Biomedical Engineering
SchoolCollege of Biological Sciences
Address228 Briggs Hall
CA 95616
Phone530-752-3047
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    Collapse Research 
    Collapse Research Activities and Funding
    International Conference on Molecular Systems Biology
    NIH/NIGMS R13GM071521Aug 1, 2004 - Jul 31, 2005
    Role: Principal Investigator
    Cellular Biotechnology Training Program (CBTP)
    NIH/NIGMS T32GM008353Jul 1, 1991 - Jun 30, 2022
    Role: Co-Principal Investigator
    Analysis of Molecular Networks and Control Systems
    NIH/NIGMS R01GM030054Apr 1, 1982 - Apr 30, 2016
    Role: Principal Investigator

    Collapse Bibliographic 
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    1. Phenotype Design Space Provides a Mechanistic Framework Relating Molecular Parameters to Phenotype Diversity Available for Selection. J Mol Evol. 2023 10; 91(5):687-710. Savageau MA. PMID: 37620617; PMCID: PMC10598110.
      View in: PubMed   Mentions: 1     Fields:    
    2. Phenotype-centric modeling for rational metabolic engineering. Metab Eng. 2022 07; 72:365-375. Valderrama-Gómez MÁ, Savageau MA. PMID: 35537663.
      View in: PubMed   Mentions:    Fields:    
    3. TaxisPy: A Python-based software for the quantitative analysis of bacterial chemotaxis. J Microbiol Methods. 2020 08; 175:105918. Valderrama-Gómez MÁ, Schomer RA, Savageau MA, Parales RE. PMID: 32512119.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    4. Mechanistic Modeling of Biochemical Systems without A Priori Parameter Values Using the Design Space Toolbox v.3.0. iScience. 2020 Jun 26; 23(6):101200. Valderrama-Gómez MÁ, Lomnitz JG, Fasani RA, Savageau MA. PMID: 32531747; PMCID: PMC7287267.
      View in: PubMed   Mentions: 1  
    5. Molecular Mechanisms Driving Switch Behavior in Xylem Cell Differentiation. Cell Rep. 2019 07 09; 28(2):342-351.e4. Turco GM, Rodriguez-Medina J, Siebert S, Han D, Valderrama-Gómez MÁ, Vahldick H, Shulse CN, Cole BJ, Juliano CE, Dickel DE, Savageau MA, Brady SM. PMID: 31291572.
      View in: PubMed   Mentions: 32     Fields:    Translation:Animals
    6. Phenotype-centric modeling for elucidation of biological design principles. J Theor Biol. 2018 10 14; 455:281-292. Valderrama-Gómez MA, Parales RE, Savageau MA. PMID: 30036529.
      View in: PubMed   Mentions: 2     Fields:    
    7. Rapid Discrimination Among Putative Mechanistic Models of Biochemical Systems. Sci Rep. 2016 08 31; 6:32375. Lomnitz JG, Savageau MA. PMID: 27578053; PMCID: PMC5006174.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    8. Design Space Toolbox V2: Automated Software Enabling a Novel Phenotype-Centric Modeling Strategy for Natural and Synthetic Biological Systems. Front Genet. 2016; 7:118. Lomnitz JG, Savageau MA. PMID: 27462346; PMCID: PMC4940394.
      View in: PubMed   Mentions: 6  
    9. Elucidating the genotype-phenotype map by automatic enumeration and analysis of the phenotypic repertoire. NPJ Syst Biol Appl. 2015; 1. Lomnitz JG, Savageau MA. PMID: 26998346; PMCID: PMC4794114.
      View in: PubMed   Mentions: 6     Fields:    
    10. Unrelated toxin-antitoxin systems cooperate to induce persistence. J R Soc Interface. 2015 Jul 06; 12(108):20150130. Fasani RA, Savageau MA. PMID: 26063817; PMCID: PMC4528579.
      View in: PubMed   Mentions: 6     Fields:    Translation:Cells
    11. Design principles of a conditional futile cycle exploited for regulation. Mol Biosyst. 2015 Jul; 11(7):1841-9. Tolla DA, Kiley PJ, Lomnitz JG, Savageau MA. PMID: 25851148; PMCID: PMC4470783.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    12. Evolution of a genome-encoded bias in amino acid biosynthetic pathways is a potential indicator of amino acid dynamics in the environment. Mol Biol Evol. 2014 Nov; 31(11):2865-78. Fasani RA, Savageau MA. PMID: 25118252; PMCID: PMC4209129.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    13. Strategy revealing phenotypic differences among synthetic oscillator designs. ACS Synth Biol. 2014 Sep 19; 3(9):686-701. Lomnitz JG, Savageau MA. PMID: 25019938; PMCID: PMC4210169.
      View in: PubMed   Mentions: 13     Fields:    Translation:Cells
    14. Relative amino acid composition signatures of organisms and environments. PLoS One. 2013; 8(10):e77319. Moura A, Savageau MA, Alves R. PMID: 24204807; PMCID: PMC3808408.
      View in: PubMed   Mentions: 33     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    15. Molecular mechanisms of multiple toxin-antitoxin systems are coordinated to govern the persister phenotype. Proc Natl Acad Sci U S A. 2013 Jul 02; 110(27):E2528-37. Fasani RA, Savageau MA. PMID: 23781105; PMCID: PMC3703989.
      View in: PubMed   Mentions: 60     Fields:    Translation:Cells
    16. Transcription factors in Escherichia coli prefer the holo conformation. PLoS One. 2013; 8(6):e65723. Balderas-Martínez YI, Savageau M, Salgado H, Pérez-Rueda E, Morett E, Collado-Vides J. PMID: 23776535; PMCID: PMC3680503.
      View in: PubMed   Mentions: 14     Fields:    Translation:Cells
    17. Phenotypic deconstruction of gene circuitry. Chaos. 2013 Jun; 23(2):025108. Lomnitz JG, Savageau MA. PMID: 23822506; PMCID: PMC3695976.
      View in: PubMed   Mentions: 9     Fields:    
    18. A bistable hysteretic switch in an activator-repressor regulated restriction-modification system. Nucleic Acids Res. 2013 Jul; 41(12):6045-57. Williams K, Savageau MA, Blumenthal RM. PMID: 23630319; PMCID: PMC3695507.
      View in: PubMed   Mentions: 15     Fields:    Translation:Cells
    19. Regulatory design governing progression of population growth phases in bacteria. PLoS One. 2012; 7(2):e30654. Martínez-Antonio A, Lomnitz JG, Sandoval S, Aldana M, Savageau MA. PMID: 22363461; PMCID: PMC3283595.
      View in: PubMed   Mentions: 9     Fields:    Translation:Cells
    20. Design of the lac gene circuit revisited. Math Biosci. 2011 May; 231(1):19-38. Savageau MA. PMID: 21414326; PMCID: PMC3126112.
      View in: PubMed   Mentions: 10     Fields:    Translation:Humans
    21. Biomedical engineering strategies in system design space. Ann Biomed Eng. 2011 Apr; 39(4):1278-95. Savageau MA. PMID: 21203848; PMCID: PMC3074507.
      View in: PubMed   Mentions: 6     Fields:    Translation:AnimalsCells
    22. Phenotypic repertoire of the FNR regulatory network in Escherichia coli. Mol Microbiol. 2011 Jan; 79(1):149-65. Tolla DA, Savageau MA. PMID: 21166900; PMCID: PMC3075585.
      View in: PubMed   Mentions: 15     Fields:    Translation:Cells
    23. Relating mutant genotype to phenotype via quantitative behavior of the NADPH redox cycle in human erythrocytes. PLoS One. 2010 Sep 28; 5(9). Coelho PM, Salvador A, Savageau MA. PMID: 20927393; PMCID: PMC2946920.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansAnimalsCells
    24. Automated construction and analysis of the design space for biochemical systems. Bioinformatics. 2010 Oct 15; 26(20):2601-9. Fasani RA, Savageau MA. PMID: 20823298; PMCID: PMC3025649.
      View in: PubMed   Mentions: 14     Fields:    Translation:Cells
    25. Regulation of aerobic-to-anaerobic transitions by the FNR cycle in Escherichia coli. J Mol Biol. 2010 Apr 09; 397(4):893-905. Tolla DA, Savageau MA. PMID: 20156450; PMCID: PMC2867928.
      View in: PubMed   Mentions: 16     Fields:    Translation:Cells
    26. Duplication frequency in a population of Salmonella enterica rapidly approaches steady state with or without recombination. Genetics. 2010 Apr; 184(4):1077-94. Reams AB, Kofoid E, Savageau M, Roth JR. PMID: 20083614; PMCID: PMC2865909.
      View in: PubMed   Mentions: 71     Fields:    Translation:Cells
    27. Qualitatively distinct phenotypes in the design space of biochemical systems. FEBS Lett. 2009 Dec 17; 583(24):3914-22. Savageau MA, Fasani RA. PMID: 19879266; PMCID: PMC2888490.
      View in: PubMed   Mentions: 17     Fields:    
    28. Quantifying global tolerance of biochemical systems: design implications for moiety-transfer cycles. PLoS Comput Biol. 2009 Mar; 5(3):e1000319. Coelho PM, Salvador A, Savageau MA. PMID: 19300483; PMCID: PMC2650413.
      View in: PubMed   Mentions: 18     Fields:    Translation:Cells
    29. Phenotypes and tolerances in the design space of biochemical systems. Proc Natl Acad Sci U S A. 2009 Apr 21; 106(16):6435-40. Savageau MA, Coelho PM, Fasani RA, Tolla DA, Salvador A. PMID: 19279208; PMCID: PMC2672487.
      View in: PubMed   Mentions: 37     Fields:    
    30. Hysteretic and graded responses in bacterial two-component signal transduction. Mol Microbiol. 2008 Jun; 68(5):1196-215. Igoshin OA, Alves R, Savageau MA. PMID: 18363790; PMCID: PMC4372536.
      View in: PubMed   Mentions: 38     Fields:    Translation:Cells
    31. Distinctive topologies of partner-switching signaling networks correlate with their physiological roles. J Mol Biol. 2007 Jun 22; 369(5):1333-52. Igoshin OA, Brody MS, Price CW, Savageau MA. PMID: 17498739; PMCID: PMC2727513.
      View in: PubMed   Mentions: 24     Fields:    Translation:Cells
    32. Signalling network with a bistable hysteretic switch controls developmental activation of the sigma transcription factor in Bacillus subtilis. Mol Microbiol. 2006 Jul; 61(1):165-84. Igoshin OA, Price CW, Savageau MA. PMID: 16824103.
      View in: PubMed   Mentions: 25     Fields:    Translation:Cells
    33. Evolution of enzymes in a series is driven by dissimilar functional demands. Proc Natl Acad Sci U S A. 2006 Feb 14; 103(7):2226-31. Salvador A, Savageau MA. PMID: 16461898; PMCID: PMC1413729.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    34. Evidence of selection for low cognate amino acid bias in amino acid biosynthetic enzymes. Mol Microbiol. 2005 May; 56(4):1017-34. Alves R, Savageau MA. PMID: 15853887; PMCID: PMC1839009.
      View in: PubMed   Mentions: 20     Fields:    Translation:Cells
    35. Design of gene circuits: lessons from bacteria. Nat Rev Genet. 2004 Jan; 5(1):34-42. Wall ME, Hlavacek WS, Savageau MA. PMID: 14708014.
      View in: PubMed   Mentions: 81     Fields:    Translation:Cells
    36. Quantitative evolutionary design of glucose 6-phosphate dehydrogenase expression in human erythrocytes. Proc Natl Acad Sci U S A. 2003 Nov 25; 100(24):14463-8. Salvador A, Savageau MA. PMID: 14614139; PMCID: PMC283614.
      View in: PubMed   Mentions: 17     Fields:    Translation:HumansCells
    37. Design principles for regulator gene expression in a repressible gene circuit. J Mol Biol. 2003 Sep 26; 332(4):861-76. Wall ME, Hlavacek WS, Savageau MA. PMID: 12972257.
      View in: PubMed   Mentions: 19     Fields:    
    38. Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli. Cell. 2003 May 30; 113(5):597-607. Atkinson MR, Savageau MA, Myers JT, Ninfa AJ. PMID: 12787501.
      View in: PubMed   Mentions: 239     Fields:    Translation:Cells
    39. Comparative analysis of prototype two-component systems with either bifunctional or monofunctional sensors: differences in molecular structure and physiological function. Mol Microbiol. 2003 Apr; 48(1):25-51. Alves R, Savageau MA. PMID: 12657043.
      View in: PubMed   Mentions: 42     Fields:    Translation:Cells
    40. Design principles for elementary gene circuits: Elements, methods, and examples. Chaos. 2001 Mar; 11(1):142-159. Savageau MA. PMID: 12779449.
      View in: PubMed   Mentions: 61     Fields:    
    41. Irreversibility in unbranched pathways: preferred positions based on regulatory considerations. Biophys J. 2001 Mar; 80(3):1174-85. Alves R, Savageau MA. PMID: 11222282; PMCID: PMC1301313.
      View in: PubMed   Mentions: 7     Fields:    
    42. Effect of overall feedback inhibition in unbranched biosynthetic pathways. Biophys J. 2000 Nov; 79(5):2290-304. Alves R, Savageau MA. PMID: 11053109; PMCID: PMC1301117.
      View in: PubMed   Mentions: 13     Fields:    
    43. Extending the method of mathematically controlled comparison to include numerical comparisons. Bioinformatics. 2000 Sep; 16(9):786-98. Alves R, Savageau MA. PMID: 11108701.
      View in: PubMed   Mentions: 28     Fields:    
    44. Systemic properties of ensembles of metabolic networks: application of graphical and statistical methods to simple unbranched pathways. Bioinformatics. 2000 Jun; 16(6):534-47. Alves R, Savageau MA. PMID: 10980151.
      View in: PubMed   Mentions: 16     Fields:    
    45. Comparing systemic properties of ensembles of biological networks by graphical and statistical methods. Bioinformatics. 2000 Jun; 16(6):527-33. Alves R, Savageau MA. PMID: 10980150.
      View in: PubMed   Mentions: 17     Fields:    
    46. Design of gene circuitry by natural selection: analysis of the lactose catabolic system in Escherichia coli. Biochem Soc Trans. 1999 Feb; 27(2):264-70. Savageau MA. PMID: 10093745.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    47. Demand theory of gene regulation. II. Quantitative application to the lactose and maltose operons of Escherichia coli. Genetics. 1998 Aug; 149(4):1677-91. Savageau MA. PMID: 9691028; PMCID: PMC1460280.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansCells
    48. Demand theory of gene regulation. I. Quantitative development of the theory. Genetics. 1998 Aug; 149(4):1665-76. Savageau MA. PMID: 9691027; PMCID: PMC1460276.
      View in: PubMed   Mentions: 27     Fields:    Translation:AnimalsCells
    49. Development of fractal kinetic theory for enzyme-catalysed reactions and implications for the design of biochemical pathways. Biosystems. 1998 Jun-Jul; 47(1-2):9-36. Savageau MA. PMID: 9715749.
      View in: PubMed   Mentions: 18     Fields:    Translation:Cells
    50. Rules for the evolution of gene circuitry. Pac Symp Biocomput. 1998; 54-65. Savageau MA. PMID: 9697171.
      View in: PubMed   Mentions: 6     Fields:    Translation:Cells
    51. Completely uncoupled and perfectly coupled gene expression in repressible systems. J Mol Biol. 1997 Feb 28; 266(3):538-58. Hlavacek WS, Savageau MA. PMID: 9067609.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansAnimals
    52. Model assessment and refinement using strategies from biochemical systems theory: application to metabolism in human red blood cells. J Theor Biol. 1996 Apr 21; 179(4):329-68. Ni TC, Savageau MA. PMID: 8763353.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCells
    53. Application of biochemical systems theory to metabolism in human red blood cells. Signal propagation and accuracy of representation. J Biol Chem. 1996 Apr 05; 271(14):7927-41. Ni TC, Savageau MA. PMID: 8626472.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansCells
    54. Rules for coupled expression of regulator and effector genes in inducible circuits. J Mol Biol. 1996 Jan 12; 255(1):121-39. Hlavacek WS, Savageau MA. PMID: 8568860.
      View in: PubMed   Mentions: 30     Fields:    Translation:Cells
    55. Michaelis-Menten mechanism reconsidered: implications of fractal kinetics. J Theor Biol. 1995 Sep 07; 176(1):115-24. Savageau MA. PMID: 7475096.
      View in: PubMed   Mentions: 29     Fields:    Translation:AnimalsCells
    56. Subunit structure of regulator proteins influences the design of gene circuitry: analysis of perfectly coupled and completely uncoupled circuits. J Mol Biol. 1995 May 12; 248(4):739-55. Hlavacek WS, Savageau MA. PMID: 7752237.
      View in: PubMed   Mentions: 11     Fields:    Translation:Cells
    57. Influence of fractal kinetics on molecular recognition. J Mol Recognit. 1993 Dec; 6(4):149-57. Savageau MA. PMID: 7917410.
      View in: PubMed   Mentions: 6     Fields:    
    58. The tricarboxylic acid cycle in Dictyostelium discoideum. Systemic effects of including protein turnover in the current model. J Biol Chem. 1993 Aug 15; 268(23):16917-28. Shiraishi F, Savageau MA. PMID: 8349583.
      View in: PubMed   Mentions: 4     Fields:    Translation:AnimalsCells
    59. The tricarboxylic acid cycle in Dictyostelium discoideum. III. Analysis of steady state and dynamic behavior. J Biol Chem. 1992 Nov 15; 267(32):22926-33. Shiraishi F, Savageau MA. PMID: 1429643.
      View in: PubMed   Mentions: 7     Fields:    Translation:AnimalsCells
    60. The tricarboxylic acid cycle in Dictyostelium discoideum. IV. Resolution of discrepancies between alternative methods of analysis. J Biol Chem. 1992 Nov 15; 267(32):22934-43. Shiraishi F, Savageau MA. PMID: 1429644.
      View in: PubMed   Mentions: 7     Fields:    Translation:AnimalsCells
    61. The tricarboxylic acid cycle in Dictyostelium discoideum. II. Evaluation of model consistency and robustness. J Biol Chem. 1992 Nov 15; 267(32):22919-25. Shiraishi F, Savageau MA. PMID: 1429642.
      View in: PubMed   Mentions: 9     Fields:    Translation:AnimalsCells
    62. The tricarboxylic acid cycle in Dictyostelium discoideum. I. Formulation of alternative kinetic representations. J Biol Chem. 1992 Nov 15; 267(32):22912-8. Shiraishi F, Savageau MA. PMID: 1429641.
      View in: PubMed   Mentions: 16     Fields:    Translation:AnimalsCells
    63. Metabolite channeling: implications for regulation of metabolism and for quantitative description of reactions in vivo. J Theor Biol. 1991 Sep 07; 152(1):85-92. Savageau MA. PMID: 1753775.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    64. Biochemical systems theory: operational differences among variant representations and their significance. J Theor Biol. 1991 Aug 21; 151(4):509-30. Savageau MA. PMID: 1943154.
      View in: PubMed   Mentions: 7     Fields:    Translation:Animals
    65. Reconstructionist molecular biology. New Biol. 1991 Feb; 3(2):190-7. Savageau MA. PMID: 2065013.
      View in: PubMed   Mentions: 4     Fields:    
    66. Constraints among molecular and systemic properties: implications for physiological genetics. J Theor Biol. 1989 Nov 08; 141(1):93-115. Savageau MA, Sorribas A. PMID: 2634164.
      View in: PubMed   Mentions: 10     Fields:    
    67. Accuracy of alternative representations for integrated biochemical systems. Biochemistry. 1987 Oct 20; 26(21):6869-80. Voit EO, Savageau MA. PMID: 3427048.
      View in: PubMed   Mentions: 18     Fields:    
    68. Allometric morphogenesis of complex systems: Derivation of the basic equations from first principles. Proc Natl Acad Sci U S A. 1979 Dec; 76(12):6023-5. Savageau MA. PMID: 16592726; PMCID: PMC411791.
      View in: PubMed   Mentions: 11     Fields:    
    69. Growth of complex systems can be related to the properties of their underlying determinants. Proc Natl Acad Sci U S A. 1979 Nov; 76(11):5413-7. Savageau MA. PMID: 16592715; PMCID: PMC411657.
      View in: PubMed   Mentions: 9     Fields:    
    70. Genetic regulatory mechanisms and the ecological niche of Escherichia coli. Proc Natl Acad Sci U S A. 1974 Jun; 71(6):2453-5. Savageau MA. PMID: 4601590; PMCID: PMC388476.
      View in: PubMed   Mentions: 21     Fields:    Translation:AnimalsCells
    71. Biochemical systems analysis. 3. Dynamic solutions using a power-law approximation. J Theor Biol. 1970 Feb; 26(2):215-26. Savageau MA. PMID: 5434343.
      View in: PubMed   Mentions: 44     Fields:    Translation:Cells
    72. Biochemical systems analysis. II. The steady-state solutions for an n-pool system using a power-law approximation. J Theor Biol. 1969 Dec; 25(3):370-9. Savageau MA. PMID: 5387047.
      View in: PubMed   Mentions: 92     Fields:    Translation:Cells
    73. Biochemical systems analysis. I. Some mathematical properties of the rate law for the component enzymatic reactions. J Theor Biol. 1969 Dec; 25(3):365-9. Savageau MA. PMID: 5387046.
      View in: PubMed   Mentions: 103     Fields:    
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