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Liao James

TitleChair
InstitutionUniversity of California Los Angeles
DepartmentChemical and Biomolecular Engineering
Address5531 Boelter Hall
420 Westwood Plaza
Los Angeles CA 90095
Phone1 (310) 206-4107
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    Other Positions
    TitleProfessor


    Collapse Research 
    Collapse Research Activities and Funding
    Chemogenomic Analysis of E. coli Response to NO species
    NIH/NIGMS R01GM076143Feb 1, 2007 - Jan 31, 2011
    Role: Principal Investigator
    Engineering Large scale pathways from organisms to Escherichia coli
    NIH/NIGMS R01GM077625Mar 1, 2006 - Aug 28, 2009
    Role: Principal Investigator
    Automated Chip-Based Metabolomic Analysis
    NIH/NIDDK R33DK070328Apr 1, 2005 - Mar 31, 2008
    Role: Principal Investigator
    Nitric Oxide Interaction with Red Blood Cells
    NIH/NHLBI R01HL065741Sep 27, 2000 - Mar 31, 2012
    Role: Principal Investigator

    Collapse Bibliographic 
    Collapse Publications
    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.
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    1. Yu H, Li X, Duchoud F, Chuang DS, Liao J. Augmenting the Calvin-Benson-Bassham cycle by a synthetic malyl-CoA-glycerate carbon fixation pathway. Nat Commun. 2018 May 22; 9(1):2008. PMID: 29789614.
      View in: PubMed
    2. Pontrelli S, Chiu TY, Lan EI, Chen FY, Chang P, Liao J. Escherichia coli as a host for metabolic engineering. Metab Eng. 2018 Apr 22. PMID: 29689382.
      View in: PubMed
    3. Lin PP, Jaeger AJ, Wu TY, Xu SC, Lee AS, Gao F, Chen PW, Liao J. Construction and evolution of an Escherichia coli strain relying on nonoxidative glycolysis for sugar catabolism. Proc Natl Acad Sci U S A. 2018 Apr 03; 115(14):3538-3546. PMID: 29555759.
      View in: PubMed
    4. Black WB, Zhang L, Kamoku C, Liao J, Li H. Rearrangement of Coenzyme A-Acylated Carbon Chain Enables Synthesis of Isobutanol via a Novel Pathway in Ralstonia eutropha. ACS Synth Biol. 2018 Mar 16; 7(3):794-800. PMID: 29429336.
      View in: PubMed
    5. Nitta K, Laviña WA, Pontrelli S, Liao J, Putri SP, Fukusaki E. Orthogonal partial least squares/projections to latent structures regression-based metabolomics approach for identification of gene targets for improvement of 1-butanol production in Escherichia coli. J Biosci Bioeng. 2017 Nov; 124(5):498-505. PMID: 28669528.
      View in: PubMed
    6. Ohtake T, Pontrelli S, Laviña WA, Liao J, Putri SP, Fukusaki E. Metabolomics-driven approach to solving a CoA imbalance for improved 1-butanol production in Escherichia coli. Metab Eng. 2017 05; 41:135-143. PMID: 28400330.
      View in: PubMed
    7. Lafontaine Rivera JG, Theisen MK, Chen PW, Liao J. Kinetically accessible yield (KAY) for redirection of metabolism to produce exo-metabolites. Metab Eng. 2017 05; 41:144-151. PMID: 28389394.
      View in: PubMed
    8. Chen PW, Theisen MK, Liao J. Metabolic systems modeling for cell factories improvement. Curr Opin Biotechnol. 2017 08; 46:114-119. PMID: 28388485.
      View in: PubMed
    9. Wang J, Jain R, Shen X, Sun X, Cheng M, Liao J, Yuan Q, Yan Y. Rational engineering of diol dehydratase enables 1,4-butanediol biosynthesis from xylose. Metab Eng. 2017 03; 40:148-156. PMID: 28215518.
      View in: PubMed
    10. Soh LMJ, Mak WS, Lin PP, Mi L, Chen FY, Damoiseaux R, Siegel JB, Liao J. Engineering a Thermostable Keto Acid Decarboxylase Using Directed Evolution and Computationally Directed Protein Design. ACS Synth Biol. 2017 04 21; 6(4):610-618. PMID: 28052191.
      View in: PubMed
    11. Xiong W, Lin PP, Magnusson L, Warner L, Liao J, Maness PC, Chou KJ. CO2-fixing one-carbon metabolism in a cellulose-degrading bacterium Clostridium thermocellum. Proc Natl Acad Sci U S A. 2016 11 15; 113(46):13180-13185. PMID: 27794122.
      View in: PubMed
    12. Mak WS, Tran S, Marcheschi R, Bertolani S, Thompson J, Baker D, Liao J, Siegel JB. Corrigendum: Integrative genomic mining for enzyme function to enable engineering of a non-natural biosynthetic pathway. Nat Commun. 2016 Jun 07; 7:11912. PMID: 27271283; PMCID: PMC4899625.
    13. Liao J, Mi L, Pontrelli S, Luo S. Fuelling the future: microbial engineering for the production of sustainable biofuels. Nat Rev Microbiol. 2016 Apr; 14(5):288-304. PMID: 27026253.
      View in: PubMed
    14. Theisen MK, Lafontaine Rivera JG, Liao J. Stability of Ensemble Models Predicts Productivity of Enzymatic Systems. PLoS Comput Biol. 2016 Mar; 12(3):e1004800. PMID: 26963521; PMCID: PMC4786283.
    15. Wu TY, Chen CT, Liu JT, Bogorad IW, Damoiseaux R, Liao J. Characterization and evolution of an activator-independent methanol dehydrogenase from Cupriavidus necator N-1. Appl Microbiol Biotechnol. 2016 Jun; 100(11):4969-83. PMID: 26846745.
      View in: PubMed
    16. Wernick DG, Pontrelli SP, Pollock AW, Liao J. Sustainable biorefining in wastewater by engineered extreme alkaliphile Bacillus marmarensis. Sci Rep. 2016 Feb 01; 6:20224. PMID: 26831574; PMCID: PMC4735285.
    17. Chen CT, Liao J. Frontiers in microbial 1-butanol and isobutanol production. FEMS Microbiol Lett. 2016 Mar; 363(5):fnw020. PMID: 26832641.
      View in: PubMed
    18. Noguchi S, Putri SP, Lan EI, Laviña WA, Dempo Y, Bamba T, Liao J, Fukusaki E. Quantitative target analysis and kinetic profiling of acyl-CoAs reveal the rate-limiting step in cyanobacterial 1-butanol production. Metabolomics. 2016; 12:26. PMID: 26766939.
      View in: PubMed
    19. Mak WS, Tran S, Marcheschi R, Bertolani S, Thompson J, Baker D, Liao J, Siegel JB. Integrative genomic mining for enzyme function to enable engineering of a non-natural biosynthetic pathway. Nat Commun. 2015 Nov 24; 6:10005. PMID: 26598135.
      View in: PubMed
    20. Lan EI, Chuang DS, Shen CR, Lee AM, Ro SY, Liao J. Metabolic engineering of cyanobacteria for photosynthetic 3-hydroxypropionic acid production from CO2 using Synechococcus elongatus PCC 7942. Metab Eng. 2015 Sep; 31:163-70. PMID: 26278506.
      View in: PubMed
    21. Lafontaine Rivera JG, Lee Y, Liao J. An entropy-like index of bifurcational robustness for metabolic systems. Integr Biol (Camb). 2015 Aug; 7(8):895-903. PMID: 25855352.
      View in: PubMed
    22. Lin PP, Mi L, Morioka AH, Yoshino KM, Konishi S, Xu SC, Papanek BA, Riley LA, Guss AM, Liao J. Consolidated bioprocessing of cellulose to isobutanol using Clostridium thermocellum. Metab Eng. 2015 Sep; 31:44-52. PMID: 26170002.
      View in: PubMed
    23. Chung NC, Huang YH, Chang CH, Liao J, Yang CH, Chen CC, Liu IY. Behavior training reverses asymmetry in hippocampal transcriptome of the cav3.2 knockout mice. PLoS One. 2015; 10(3):e0118832. PMID: 25768289; PMCID: PMC4358833.
    24. Ho CK, Rahib L, Liao J, Sriram G, Dipple KM. Mathematical modeling of the insulin signal transduction pathway for prediction of insulin sensitivity from expression data. Mol Genet Metab. 2015 Jan; 114(1):66-72. PMID: 25468647; PMCID: PMC4319670.
    25. Bogorad IW, Chen CT, Theisen MK, Wu TY, Schlenz AR, Lam AT, Liao J. Building carbon-carbon bonds using a biocatalytic methanol condensation cycle. Proc Natl Acad Sci U S A. 2014 Nov 11; 111(45):15928-33. PMID: 25355907; PMCID: PMC4234558.
    26. Lee Y, Lafontaine Rivera JG, Liao J. Ensemble Modeling for Robustness Analysis in engineering non-native metabolic pathways. Metab Eng. 2014 Sep; 25:63-71. PMID: 24972370.
      View in: PubMed
    27. Khodayari A, Zomorrodi AR, Liao J, Maranas CD. A kinetic model of Escherichia coli core metabolism satisfying multiple sets of mutant flux data. Metab Eng. 2014 Sep; 25:50-62. PMID: 24928774.
      View in: PubMed
    28. Nielsen J, Fussenegger M, Keasling J, Lee SY, Liao J, Prather K, Palsson B. Engineering synergy in biotechnology. Nat Chem Biol. 2014 May; 10(5):319-22. PMID: 24743245.
      View in: PubMed
    29. Li H, Liao J. A synthetic anhydrotetracycline-controllable gene expression system in Ralstonia eutropha H16. ACS Synth Biol. 2015 Feb 20; 4(2):101-6. PMID: 24702232.
      View in: PubMed
    30. Lin PP, Rabe KS, Takasumi JL, Kadisch M, Arnold FH, Liao J. Isobutanol production at elevated temperatures in thermophilic Geobacillus thermoglucosidasius. Metab Eng. 2014 Jul; 24:1-8. PMID: 24721011.
      View in: PubMed
    31. Li X, Shen CR, Liao J. Isobutanol production as an alternative metabolic sink to rescue the growth deficiency of the glycogen mutant of Synechococcus elongatus PCC 7942. Photosynth Res. 2014 Jun; 120(3):301-10. PMID: 24590366.
      View in: PubMed
    32. Harper M, Gronenberg L, Liao J, Lee C. Comprehensive detection of genes causing a phenotype using phenotype sequencing and pathway analysis. PLoS One. 2014; 9(2):e88072. PMID: 24586303; PMCID: PMC3935835.
    33. Choi KY, Wernick DG, Tat CA, Liao J. Consolidated conversion of protein waste into biofuels and ammonia using Bacillus subtilis. Metab Eng. 2014 May; 23:53-61. PMID: 24566040.
      View in: PubMed
    34. Wernick DG, Choi KY, Tat CA, Lafontaine Rivera JG, Liao J. Genome Sequence of the Extreme Obligate Alkaliphile Bacillus marmarensis Strain DSM 21297. Genome Announc. 2013 Nov 27; 1(6). PMID: 24285666; PMCID: PMC3869328.
    35. Bogorad IW, Lin TS, Liao J. Synthetic non-oxidative glycolysis enables complete carbon conservation. Nature. 2013 Oct 31; 502(7473):693-7. PMID: 24077099.
      View in: PubMed
    36. Kusakabe T, Tatsuke T, Tsuruno K, Hirokawa Y, Atsumi S, Liao J, Hanai T. Engineering a synthetic pathway in cyanobacteria for isopropanol production directly from carbon dioxide and light. Metab Eng. 2013 Nov; 20:101-8. PMID: 24076145.
      View in: PubMed
    37. Li H, Liao J. Development of an NADPH-dependent homophenylalanine dehydrogenase by protein engineering. ACS Synth Biol. 2014 Jan 17; 3(1):13-20. PMID: 24053171.
      View in: PubMed
    38. Minty JJ, Singer ME, Scholz SA, Bae CH, Ahn JH, Foster CE, Liao J, Lin XN. Design and characterization of synthetic fungal-bacterial consortia for direct production of isobutanol from cellulosic biomass. Proc Natl Acad Sci U S A. 2013 Sep 03; 110(36):14592-7. PMID: 23959872; PMCID: PMC3767521.
    39. Mainguet SE, Gronenberg LS, Wong SS, Liao J. A reverse glyoxylate shunt to build a non-native route from C4 to C2 in Escherichia coli. Metab Eng. 2013 Sep; 19:116-27. PMID: 23938029.
      View in: PubMed
    40. Zomorrodi AR, Lafontaine Rivera JG, Liao J, Maranas CD. Optimization-driven identification of genetic perturbations accelerates the convergence of model parameters in ensemble modeling of metabolic networks. Biotechnol J. 2013 Sep; 8(9):1090-104. PMID: 23450699.
      View in: PubMed
    41. Gronenberg LS, Marcheschi RJ, Liao J. Next generation biofuel engineering in prokaryotes. Curr Opin Chem Biol. 2013 Jun; 17(3):462-71. PMID: 23623045; PMCID: PMC4211605.
    42. Marcheschi RJ, Gronenberg LS, Liao J. Protein engineering for metabolic engineering: current and next-generation tools. Biotechnol J. 2013 May; 8(5):545-55. PMID: 23589443; PMCID: PMC4134947.
    43. Shen CR, Liao J. Synergy as design principle for metabolic engineering of 1-propanol production in Escherichia coli. Metab Eng. 2013 May; 17:12-22. PMID: 23376654.
      View in: PubMed
    44. Li H, Liao J. Engineering a cyanobacterium as the catalyst for the photosynthetic conversion of CO2 to 1,2-propanediol. Microb Cell Fact. 2013 Jan 22; 12:4. PMID: 23339487; PMCID: PMC3556108.
    45. Wernick DG, Liao J. Protein-based biorefining: metabolic engineering for production of chemicals and fuel with regeneration of nitrogen fertilizers. Appl Microbiol Biotechnol. 2013 Feb; 97(4):1397-406. PMID: 23296497.
      View in: PubMed
    46. Lan EI, Liao J. Microbial synthesis of n-butanol, isobutanol, and other higher alcohols from diverse resources. Bioresour Technol. 2013 May; 135:339-49. PMID: 23186690.
      View in: PubMed
    47. Machado HB, Dekishima Y, Luo H, Lan EI, Liao J. A selection platform for carbon chain elongation using the CoA-dependent pathway to produce linear higher alcohols. Metab Eng. 2012 Sep; 14(5):504-11. PMID: 22819734.
      View in: PubMed
    48. Felnagle EA, Chaubey A, Noey EL, Houk KN, Liao J. Engineering synthetic recursive pathways to generate non-natural small molecules. Nat Chem Biol. 2012 May 17; 8(6):518-26. PMID: 22596203.
      View in: PubMed
    49. Lan EI, Liao J. ATP drives direct photosynthetic production of 1-butanol in cyanobacteria. Proc Natl Acad Sci U S A. 2012 Apr 17; 109(16):6018-23. PMID: 22474341; PMCID: PMC3341080.
    50. Li H, Opgenorth PH, Wernick DG, Rogers S, Wu TY, Higashide W, Malati P, Huo YX, Cho KM, Liao J. Integrated electromicrobial conversion of CO2 to higher alcohols. Science. 2012 Mar 30; 335(6076):1596. PMID: 22461604.
      View in: PubMed
    51. Liao J, Messing J. Energy biotechnology. Curr Opin Biotechnol. 2012 Jun; 23(3):287-9. PMID: 22444949.
      View in: PubMed
    52. Tran LM, Chang CJ, Plaisier S, Wu S, Dang J, Mischel PS, Liao J, Graeber TG, Wu H. Determining PTEN functional status by network component deduced transcription factor activities. PLoS One. 2012; 7(2):e31053. PMID: 22347425; PMCID: PMC3275574.
    53. Marcheschi RJ, Li H, Zhang K, Noey EL, Kim S, Chaubey A, Houk KN, Liao J. A synthetic recursive "+1" pathway for carbon chain elongation. ACS Chem Biol. 2012 Apr 20; 7(4):689-97. PMID: 22242720; PMCID: PMC3571861.
    54. Li Y, Tschaplinski TJ, Engle NL, Hamilton CY, Rodriguez M, Liao J, Schadt CW, Guss AM, Yang Y, Graham DE. Combined inactivation of the Clostridium cellulolyticum lactate and malate dehydrogenase genes substantially increases ethanol yield from cellulose and switchgrass fermentations. Biotechnol Biofuels. 2012 Jan 04; 5(1):2. PMID: 22214220; PMCID: PMC3268733.
    55. Hu CW, Chang YL, Chen SJ, Kuo-Huang LL, Liao J, Huang HC, Juan HF. Revealing the functions of the transketolase enzyme isoforms in Rhodopseudomonas palustris using a systems biology approach. PLoS One. 2011; 6(12):e28329. PMID: 22174789; PMCID: PMC3234253.
    56. Huo YX, Wernick DG, Liao J. Toward nitrogen neutral biofuel production. Curr Opin Biotechnol. 2012 Jun; 23(3):406-13. PMID: 22054644.
      View in: PubMed
    57. Tan Y, Liao J. Metabolic ensemble modeling for strain engineers. Biotechnol J. 2012 Mar; 7(3):343-53. PMID: 22021171.
      View in: PubMed
    58. Smith KM, Liao J. An evolutionary strategy for isobutanol production strain development in Escherichia coli. Metab Eng. 2011 Nov; 13(6):674-81. PMID: 21911074.
      View in: PubMed
    59. Tian FB, Luo H, Zhu L, Liao J, Lu XY. An efficient immersed boundary-lattice Boltzmann method for the hydrodynamic interaction of elastic filaments. J Comput Phys. 2011 Aug 10; 230(19):7266-7283. PMID: 23564971.
      View in: PubMed
    60. Dekishima Y, Lan EI, Shen CR, Cho KM, Liao J. Extending carbon chain length of 1-butanol pathway for 1-hexanol synthesis from glucose by engineered Escherichia coli. J Am Chem Soc. 2011 Aug 03; 133(30):11399-401. PMID: 21707101.
      View in: PubMed
    61. Contador CA, Andrews BA, Liao J, Asenjo JA. Identification of transcription factors perturbed by the synthesis of high levels of a foreign protein in yeast Saccharomyces cerevisiae. Biotechnol Prog. 2011 Jul; 27(4):925-36. PMID: 21656919.
      View in: PubMed
    62. Lan EI, Liao J. Metabolic engineering of cyanobacteria for 1-butanol production from carbon dioxide. Metab Eng. 2011 Jul; 13(4):353-63. PMID: 21569861.
      View in: PubMed
    63. Shen CR, Lan EI, Dekishima Y, Baez A, Cho KM, Liao J. Driving forces enable high-titer anaerobic 1-butanol synthesis in Escherichia coli. Appl Environ Microbiol. 2011 May; 77(9):2905-15. PMID: 21398484; PMCID: PMC3126405.
    64. Baez A, Cho KM, Liao J. High-flux isobutanol production using engineered Escherichia coli: a bioreactor study with in situ product removal. Appl Microbiol Biotechnol. 2011 Jun; 90(5):1681-90. PMID: 21547458; PMCID: PMC3094657.
    65. Huo YX, Cho KM, Rivera JG, Monte E, Shen CR, Yan Y, Liao J. Conversion of proteins into biofuels by engineering nitrogen flux. Nat Biotechnol. 2011 Apr; 29(4):346-51. PMID: 21378968.
      View in: PubMed
    66. Higashide W, Li Y, Yang Y, Liao J. Metabolic engineering of Clostridium cellulolyticum for production of isobutanol from cellulose. Appl Environ Microbiol. 2011 Apr; 77(8):2727-33. PMID: 21378054; PMCID: PMC3126361.
    67. Harper MA, Chen Z, Toy T, Machado IM, Nelson SF, Liao J, Lee CJ. Phenotype sequencing: identifying the genes that cause a phenotype directly from pooled sequencing of independent mutants. PLoS One. 2011 Feb 18; 6(2):e16517. PMID: 21364744; PMCID: PMC3041756.
    68. Wang W, Hein TW, Zhang C, Zawieja DC, Liao J, Kuo L. Oxidized low-density lipoprotein inhibits nitric oxide-mediated coronary arteriolar dilation by up-regulating endothelial arginase I. Microcirculation. 2011 Jan; 18(1):36-45. PMID: 21166924; PMCID: PMC3058270.
    69. Atsumi S, Wu TY, Machado IM, Huang WC, Chen PY, Pellegrini M, Liao J. Evolution, genomic analysis, and reconstruction of isobutanol tolerance in Escherichia coli. Mol Syst Biol. 2010 Dec 21; 6:449. PMID: 21179021; PMCID: PMC3018172.
    70. Mainguet SE, Liao J. Bioengineering of microorganisms for C3 to C5 alcohols production. Biotechnol J. 2010 Dec; 5(12):1297-308. PMID: 21154669.
      View in: PubMed
    71. Tan Y, Rivera JG, Contador CA, Asenjo JA, Liao J. Reducing the allowable kinetic space by constructing ensemble of dynamic models with the same steady-state flux. Metab Eng. 2011 Jan; 13(1):60-75. PMID: 21075211.
      View in: PubMed
    72. Tran LM, Hyduke DR, Liao J. Trimming of mammalian transcriptional networks using network component analysis. BMC Bioinformatics. 2010 Oct 13; 11:511. PMID: 20942926; PMCID: PMC2967563.
    73. Rizk ML, Laguna R, Smith KM, Tabita FR, Liao J. Redox homeostasis phenotypes in RubisCO-deficient Rhodobacter sphaeroides via ensemble modeling. Biotechnol Prog. 2011 Jan-Feb; 27(1):15-22. PMID: 20939096.
      View in: PubMed
    74. Inokuma K, Liao J, Okamoto M, Hanai T. Improvement of isopropanol production by metabolically engineered Escherichia coli using gas stripping. J Biosci Bioeng. 2010 Dec; 110(6):696-701. PMID: 20696614.
      View in: PubMed
    75. Wong I, Atsumi S, Huang WC, Wu TY, Hanai T, Lam ML, Tang P, Yang J, Liao J, Ho CM. An agar gel membrane-PDMS hybrid microfluidic device for long term single cell dynamic study. Lab Chip. 2010 Oct 21; 10(20):2710-9. PMID: 20664845.
      View in: PubMed
    76. Dean JT, Rizk ML, Tan Y, Dipple KM, Liao J. Ensemble modeling of hepatic fatty acid metabolism with a synthetic glyoxylate shunt. Biophys J. 2010 Apr 21; 98(8):1385-95. PMID: 20409457; PMCID: PMC2856160.
    77. Sriram G, Parr LS, Rahib L, Liao J, Dipple KM. Moonlighting function of glycerol kinase causes systems-level changes in rat hepatoma cells. Metab Eng. 2010 Jul; 12(4):332-40. PMID: 20399282; PMCID: PMC2949272.
    78. Smith KM, Cho KM, Liao J. Engineering Corynebacterium glutamicum for isobutanol production. Appl Microbiol Biotechnol. 2010 Jul; 87(3):1045-55. PMID: 20376637; PMCID: PMC2886118.
    79. Zhang K, Li H, Cho KM, Liao J. Expanding metabolism for total biosynthesis of the nonnatural amino acid L-homoalanine. Proc Natl Acad Sci U S A. 2010 Apr 06; 107(14):6234-9. PMID: 20332210; PMCID: PMC2852006.
    80. Connor MR, Cann AF, Liao J. 3-Methyl-1-butanol production in Escherichia coli: random mutagenesis and two-phase fermentation. Appl Microbiol Biotechnol. 2010 Apr; 86(4):1155-64. PMID: 20072783; PMCID: PMC2844964.
    81. Li H, Cann AF, Liao J. Biofuels: biomolecular engineering fundamentals and advances. Annu Rev Chem Biomol Eng. 2010; 1:19-36. PMID: 22432571.
      View in: PubMed
    82. Atsumi S, Higashide W, Liao J. Direct photosynthetic recycling of carbon dioxide to isobutyraldehyde. Nat Biotechnol. 2009 Dec; 27(12):1177-80. PMID: 19915552.
      View in: PubMed
    83. Cann AF, Liao J. Pentanol isomer synthesis in engineered microorganisms. Appl Microbiol Biotechnol. 2010 Jan; 85(4):893-9. PMID: 19859707; PMCID: PMC2804790.
    84. Rizk ML, Liao J. Ensemble modeling for aromatic production in Escherichia coli. PLoS One. 2009 Sep 04; 4(9):e6903. PMID: 19730732; PMCID: PMC2731926.
    85. Wong WW, Liao J. Microbial maximal specific growth rate as a square-root function of biomass yield and two kinetic parameters. Metab Eng. 2009 Nov; 11(6):409-14. PMID: 19712746.
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    86. Atsumi S, Li Z, Liao J. Acetolactate synthase from Bacillus subtilis serves as a 2-ketoisovalerate decarboxylase for isobutanol biosynthesis in Escherichia coli. Appl Environ Microbiol. 2009 Oct; 75(19):6306-11. PMID: 19684168; PMCID: PMC2753059.
    87. Yan Y, Lee CC, Liao J. Enantioselective synthesis of pure (R,R)-2,3-butanediol in Escherichia coli with stereospecific secondary alcohol dehydrogenases. Org Biomol Chem. 2009 Oct 07; 7(19):3914-7. PMID: 19763290.
      View in: PubMed
    88. Atsumi S, Wu TY, Eckl EM, Hawkins SD, Buelter T, Liao J. Engineering the isobutanol biosynthetic pathway in Escherichia coli by comparison of three aldehyde reductase/alcohol dehydrogenase genes. Appl Microbiol Biotechnol. 2010 Jan; 85(3):651-7. PMID: 19609521; PMCID: PMC2802489.
    89. Brynildsen MP, Liao J. An integrated network approach identifies the isobutanol response network of Escherichia coli. Mol Syst Biol. 2009; 5:277. PMID: 19536200; PMCID: PMC2710865.
    90. Dean JT, Tran L, Beaven S, Tontonoz P, Reue K, Dipple KM, Liao J. Resistance to diet-induced obesity in mice with synthetic glyoxylate shunt. Cell Metab. 2009 Jun; 9(6):525-36. PMID: 19490907; PMCID: PMC4277884.
    91. Connor MR, Liao J. Microbial production of advanced transportation fuels in non-natural hosts. Curr Opin Biotechnol. 2009 Jun; 20(3):307-15. PMID: 19473829.
      View in: PubMed
    92. Contador CA, Rizk ML, Asenjo JA, Liao J. Ensemble modeling for strain development of L-lysine-producing Escherichia coli. Metab Eng. 2009 Jul-Sep; 11(4-5):221-33. PMID: 19379820.
      View in: PubMed
    93. Ye C, Galbraith SJ, Liao J, Eskin E. Using network component analysis to dissect regulatory networks mediated by transcription factors in yeast. PLoS Comput Biol. 2009 Mar; 5(3):e1000311. PMID: 19300475; PMCID: PMC2649002.
    94. Lai D, Lluncor B, Schröder I, Gunsalus RP, Liao J, Monbouquette HG. Reconstruction of the archaeal isoprenoid ether lipid biosynthesis pathway in Escherichia coli through digeranylgeranylglyceryl phosphate. Metab Eng. 2009 May; 11(3):184-91. PMID: 19558961; PMCID: PMC2726270.
    95. Yan Y, Liao J. Engineering metabolic systems for production of advanced fuels. J Ind Microbiol Biotechnol. 2009 Apr; 36(4):471-9. PMID: 19198907.
      View in: PubMed
    96. Rahib L, Sriram G, Harada MK, Liao J, Dipple KM. Transcriptomic and network component analysis of glycerol kinase in skeletal muscle using a mouse model of glycerol kinase deficiency. Mol Genet Metab. 2009 Mar; 96(3):106-12. PMID: 19121967; PMCID: PMC2702540.
    97. Wong WW, Tran LM, Liao J. A hidden square-root boundary between growth rate and biomass yield. Biotechnol Bioeng. 2009 Jan 01; 102(1):73-80. PMID: 18683253.
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    98. Zhang K, Sawaya MR, Eisenberg DS, Liao J. Expanding metabolism for biosynthesis of nonnatural alcohols. Proc Natl Acad Sci U S A. 2008 Dec 30; 105(52):20653-8. PMID: 19064911; PMCID: PMC2634914.
    99. Atsumi S, Liao J. Directed evolution of Methanococcus jannaschii citramalate synthase for biosynthesis of 1-propanol and 1-butanol by Escherichia coli. Appl Environ Microbiol. 2008 Dec; 74(24):7802-8. PMID: 18952866; PMCID: PMC2607174.
    100. Tran LM, Rizk ML, Liao J. Ensemble modeling of metabolic networks. Biophys J. 2008 Dec 15; 95(12):5606-17. PMID: 18820235; PMCID: PMC2599852.
    101. Atsumi S, Liao J. Metabolic engineering for advanced biofuels production from Escherichia coli. Curr Opin Biotechnol. 2008 Oct; 19(5):414-9. PMID: 18761088; PMCID: PMC2673505.
    102. Cann AF, Liao J. Production of 2-methyl-1-butanol in engineered Escherichia coli. Appl Microbiol Biotechnol. 2008 Nov; 81(1):89-98. PMID: 18758769.
      View in: PubMed
    103. Connor MR, Liao J. Engineering of an Escherichia coli strain for the production of 3-methyl-1-butanol. Appl Environ Microbiol. 2008 Sep; 74(18):5769-75. PMID: 18676713; PMCID: PMC2547049.
    104. Bernstein JR, Bulter T, Liao J. Transfer of the high-GC cyclohexane carboxylate degradation pathway from Rhodopseudomonas palustris to Escherichia coli for production of biotin. Metab Eng. 2008 May-Jul; 10(3-4):131-40. PMID: 18396082; PMCID: PMC2525451.
    105. Lee SG, Liao J. Control of acetate production rate in Escherichia coli by regulating expression of single-copy pta using lacI(Q) in multicopy plasmid. J Microbiol Biotechnol. 2008 Feb; 18(2):334-7. PMID: 18309280.
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    112. Wong WW, Tsai TY, Liao J. Single-cell zeroth-order protein degradation enhances the robustness of synthetic oscillator. Mol Syst Biol. 2007; 3:130. PMID: 17667952; PMCID: PMC1943427.
    113. Watanabe J, Chou KJ, Liao J, Miao Y, Meng HH, Ge H, Grijalva V, Hama S, Kozak K, Buga G, Whitelegge JP, Lee TD, Farias-Eisner R, Navab M, Fogelman AM, Reddy ST. Differential association of hemoglobin with proinflammatory high density lipoproteins in atherogenic/hyperlipidemic mice. A novel biomarker of atherosclerosis. J Biol Chem. 2007 Aug 10; 282(32):23698-707. PMID: 17556366.
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    114. Brynildsen MP, Wu TY, Jang SS, Liao J. Biological network mapping and source signal deduction. Bioinformatics. 2007 Jul 15; 23(14):1783-91. PMID: 17495996.
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    115. Hyduke DR, Jarboe LR, Tran LM, Chou KJ, Liao J. Integrated network analysis identifies nitric oxide response networks and dihydroxyacid dehydratase as a crucial target in Escherichia coli. Proc Natl Acad Sci U S A. 2007 May 15; 104(20):8484-9. PMID: 17494765; PMCID: PMC1895976.
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    118. Han TH, Perloff JK, Liao J. Nitric oxide metabolism in adults with cyanotic congenital heart disease. Am J Cardiol. 2007 Mar 01; 99(5):691-5. PMID: 17317373.
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    121. Brynildsen MP, Tran LM, Liao J. Versatility and connectivity efficiency of bipartite transcription networks. Biophys J. 2006 Oct 15; 91(8):2749-59. PMID: 16815895; PMCID: PMC1578464.
    122. Galbraith SJ, Tran LM, Liao J. Transcriptome network component analysis with limited microarray data. Bioinformatics. 2006 Aug 01; 22(15):1886-94. PMID: 16766556.
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    123. MacLennan NK, Rahib L, Shin C, Fang Z, Horvath S, Dean J, Liao J, McCabe ER, Dipple KM. Targeted disruption of glycerol kinase gene in mice: expression analysis in liver shows alterations in network partners related to glycerol kinase activity. Hum Mol Genet. 2006 Feb 01; 15(3):405-15. PMID: 16368706.
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    125. Rohlin L, Trent JD, Salmon K, Kim U, Gunsalus RP, Liao J. Heat shock response of Archaeoglobus fulgidus. J Bacteriol. 2005 Sep; 187(17):6046-57. PMID: 16109946; PMCID: PMC1196131.
    126. Kao KC, Tran LM, Liao J. A global regulatory role of gluconeogenic genes in Escherichia coli revealed by transcriptome network analysis. J Biol Chem. 2005 Oct 28; 280(43):36079-87. PMID: 16141204.
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    127. Yang YL, Liao J. Determination of functional interactions among signalling pathways in Escherichia coli K-12. Metab Eng. 2005 Jul; 7(4):280-90. PMID: 16002309.
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    128. Yang YL, Suen J, Brynildsen MP, Galbraith SJ, Liao J. Inferring yeast cell cycle regulators and interactions using transcription factor activities. BMC Genomics. 2005 Jun 10; 6:90. PMID: 15949038; PMCID: PMC1180827.
    129. Fung E, Wong WW, Suen JK, Bulter T, Lee SG, Liao J. A synthetic gene-metabolic oscillator. Nature. 2005 May 05; 435(7038):118-22. PMID: 15875027.
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    130. Sriram G, Martinez JA, McCabe ER, Liao J, Dipple KM. Single-gene disorders: what role could moonlighting enzymes play? Am J Hum Genet. 2005 Jun; 76(6):911-24. PMID: 15877277; PMCID: PMC1196451.
    131. Tran LM, Brynildsen MP, Kao KC, Suen JK, Liao J. gNCA: a framework for determining transcription factor activity based on transcriptome: identifiability and numerical implementation. Metab Eng. 2005 Mar; 7(2):128-41. PMID: 15781421.
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    132. Han TH, Pelling A, Jeon TJ, Gimzewski JK, Liao J. Erythrocyte nitric oxide transport reduced by a submembrane cytoskeletal barrier. Biochim Biophys Acta. 2005 May 25; 1723(1-3):135-42. PMID: 15777627.
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    133. Zhou B, Beckwith D, Jarboe LR, Liao J. Markov Chain modeling of pyelonephritis-associated pili expression in uropathogenic Escherichia coli. Biophys J. 2005 Apr; 88(4):2541-53. PMID: 15681643; PMCID: PMC1305351.
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    135. Sabatti C, Rohlin L, Lange K, Liao J. Vocabulon: a dictionary model approach for reconstruction and localization of transcription factor binding sites. Bioinformatics. 2005 Apr 01; 21(7):922-31. PMID: 15509602.
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    136. Jarboe LR, Beckwith D, Liao J. Stochastic modeling of the phase-variable pap operon regulation in uropathogenic Escherichia coli. Biotechnol Bioeng. 2004 Oct 20; 88(2):189-203. PMID: 15449298.
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    137. Liao J. Custom design of metabolism. Nat Biotechnol. 2004 Jul; 22(7):823-4. PMID: 15229541.
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    138. Han TH, Fukuto JM, Liao J. Reductive nitrosylation and S-nitrosation of hemoglobin in inhomogeneous nitric oxide solutions. Nitric Oxide. 2004 Mar; 10(2):74-82. PMID: 15135360.
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    139. Bulter T, Lee SG, Wong WW, Fung E, Connor MR, Liao J. Design of artificial cell-cell communication using gene and metabolic networks. Proc Natl Acad Sci U S A. 2004 Feb 24; 101(8):2299-304. PMID: 14983004; PMCID: PMC356945.
    140. Yang YL, Liao J. Network component analysis of Saccharamyces cerevisiae stress response. Conf Proc IEEE Eng Med Biol Soc. 2004; 4:2937-40. PMID: 17270893.
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    141. Bulter T, Bernstein JR, Liao J. A perspective of metabolic engineering strategies: moving up the systems hierarchy. Biotechnol Bioeng. 2003 Dec 30; 84(7):815-21. PMID: 14708122.
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    142. Kao KC, Yang YL, Boscolo R, Sabatti C, Roychowdhury V, Liao J. Transcriptome-based determination of multiple transcription regulator activities in Escherichia coli by using network component analysis. Proc Natl Acad Sci U S A. 2004 Jan 13; 101(2):641-6. PMID: 14694202; PMCID: PMC327201.
    143. Liao J, Boscolo R, Yang YL, Tran LM, Sabatti C, Roychowdhury VP. Network component analysis: reconstruction of regulatory signals in biological systems. Proc Natl Acad Sci U S A. 2003 Dec 23; 100(26):15522-7. PMID: 14673099; PMCID: PMC307600.
    144. Han TH, Qamirani E, Nelson AG, Hyduke DR, Chaudhuri G, Kuo L, Liao J. Regulation of nitric oxide consumption by hypoxic red blood cells. Proc Natl Acad Sci U S A. 2003 Oct 14; 100(21):12504-9. PMID: 14523233; PMCID: PMC218787.
    145. El-Farra NH, Christofides PD, Liao J. Analysis of nitric oxide consumption by erythrocytes in blood vessels using a distributed multicellular model. Ann Biomed Eng. 2003 Mar; 31(3):294-309. PMID: 12680727.
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    146. Hyduke DR, Rohlin L, Kao KC, Liao J. A software package for cDNA microarray data normalization and assessing confidence intervals. OMICS. 2003; 7(3):227-34. PMID: 14583113.
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    147. Hatzimanikatis V, Liao J. A memorial review of Jay Bailey's contribution in prokaryotic metabolic engineering. Biotechnol Bioeng. 2002 Sep 05; 79(5):504-8. PMID: 12209822.
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    148. Joshi MS, Ferguson TB, Han TH, Hyduke DR, Liao J, Rassaf T, Bryan N, Feelisch M, Lancaster JR. Nitric oxide is consumed, rather than conserved, by reaction with oxyhemoglobin under physiological conditions. Proc Natl Acad Sci U S A. 2002 Aug 06; 99(16):10341-6. PMID: 12124398; PMCID: PMC124916.
    149. Sabatti C, Rohlin L, Oh MK, Liao J. Co-expression pattern from DNA microarray experiments as a tool for operon prediction. Nucleic Acids Res. 2002 Jul 01; 30(13):2886-93. PMID: 12087173; PMCID: PMC117043.
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