TY - Abstract A1 - Aubramani, A A1 - Floutas, C T1 - Structure Prediction of Loops with Fixed and Flexible Stems Y1 - 2012/06/14 N1 - R832721 JF - JOURNAL OF PHYSICAL CHEMISTRY B J1 - J PHYS CHEM B VL - 116 IS - 23 SP - 6670 EP - 6682 ER - TY - Abstract A1 - Baliban, R A1 - Sakellari, D A1 - Li, Z A1 - DiMaggio, P A1 - Garcia, B A1 - Floudas, C T1 - Novel protein identification methods for biomarker discovery via a proteomic analysis of periodontally healthy and diseased gingival crevicular fluid samples Y1 - 2012/03/01 N1 - R832721 JF - JOURNAL OF CLINICAL PERIODONTOLOGY J1 - J CLIN PERIODONTOL VL - 39 IS - 3 SP - 203 EP - 212 ER - TY - Abstract A1 - Baliban, R A1 - DiMaggio, P A1 - Plazas-Mayorca, M A1 - Garcia, B A1 - Floudas, C T1 - PILOT_PROTEIN: Identification of Unmodified and Modified Proteins via High-Resolution Mass Spectrometry and Mixed-Integer Linear Optimization Y1 - 2012/09/01 N1 - R832721 JF - JOURNAL OF PROTEOME RESEARCH VL - 11 IS - 9 SP - 4615 EP - 4629 ER - TY - Abstract A1 - Bellows, M A1 - Floudas, C T1 - Computational Methods for De novo Protein Design and its Applications to the Human Immunodeficiency Virus 1, Purine Nucleoside Phosphorylase, Ubiquitin Specific Protease 7, and Histone Demethylases Y1 - 2010/01/01 N1 - R832721 JF - CURRENT DRUG TARGETS VL - 11 IS - 3 SP - 264 EP - 278 ER - TY - Abstract A1 - Bellows-Peterson, M A1 - Fung, H A1 - Floudas, C A1 - Kieslich, C A1 - Zhang, L A1 - Morikis, D A1 - Wareham, K A1 - Monk, P A1 - Hawksworth, O A1 - Woodruff, T T1 - De Novo Peptide Design with C3a Receptor Agonist and Antagonist Activities: Theoretical Predictions and Experimental Validation Y1 - 2012/05/10 N1 - R832721 JF - JOURNAL OF MEDICINAL CHEMISTRY J1 - J MED CHEM VL - 55 IS - 9 SP - 4159 EP - 4168 ER - TY - Abstract A1 - Euling, S Y A1 - White, L A1 - Ovacik, M A1 - Makris, S A1 - Sen, B A1 - Androulakis, I P A1 - Hester, S A1 - Gaido, K W A1 - Kim, A S A1 - Benson, R A1 - Wilson, V S A1 - Keshava, C A1 - Keshava, N A1 - Foster, P M A1 - Gray, J A1 - Thompson, C A1 - Chiu, W T1 - An approach to using genomic data in risk assessment: dibutyl phthalate (DBP) case study. Y1 - 2009/09/ N1 - R832721 JF - REPRODUCTIVE TOXICOLOGY J1 - ADV EXP MED BIOL J2 - REPROD TOXICOL J3 - Reproductive Toxicology VL - 28 IS - 2 SP - 119 ER - TY - Abstract A1 - Foteinou, P A1 - Calvano, S A1 - Lowry, S A1 - Androulakis, I T1 - An indirect response model of endotoxin-induced systemic inflammation. Y1 - 2007/12/ N1 - R832721 JF - JOURNAL OF CRITICAL CARE J1 - J CRIT CARE VL - 22 IS - 4 SP - 337 EP - 338 ER - TY - Abstract A1 - Lopez, D A1 - Gorham, R A1 - Bellows-Peterson, M A1 - Ling, J A1 - Lo, D A1 - Floudas, C A1 - Monrikis, D T1 - A New Generation of Potent Complement Inhibitors of the Compstatin Family Y1 - 2011/06/01 N1 - R832721 JF - CHEMICAL BIOLOGY & DRUG DESIGN VL - 77 IS - 6 SP - 431 EP - 440 ER - TY - Abstract A1 - Orman, M A1 - Aria, K A1 - Yarmh, M A1 - Androulakis, I A1 - Berthiaume, F A1 - Ierapetritou, M T1 - Metabolic Flux Determination in Perfed Livers by Mass Balance Analysis: Effect of Fasting Y1 - 2010/12/01 N1 - R832721 JF - BIOTECHNOLOGY AND BIOENGINEERING J1 - BIOTECHNOL BIOENG VL - 107 IS - 5 SP - 825 EP - 835 ER - TY - Abstract A1 - Orman, M A1 - Berthiaume, F A1 - Androulakis, I A1 - Ierapetritou, M T1 - Pathway analysis of liver metabolism under stressed condition Y1 - 2011/03/07 N1 - R832721 JF - JOURNAL OF THEORETICAL BIOLOGY J1 - J THEOR BIOL VL - 272 IS - 1 SP - 131 EP - 140 ER - TY - Abstract A1 - Rajgaria, R A1 - McAllister, S A1 - Floudas, C T1 - Towards accurate residue–residue hydrophobic contact prediction for α helical proteins via integer linear optimization Y1 - 2008//02 N1 - R832721 JF - PROTEINS VL - 74 IS - 4 SP - 929 EP - 947 ER - TY - Abstract A1 - Smadbeck, J A1 - Peterson, M A1 - Kjoury, H A1 - Taylor, M A1 - Floudas, C T1 - Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules Y1 - 2013/07/10 N1 - R832721 JF - JOVE-JOURNAL OF VISUALIZED EXPERIMENTS IS - 77 SP - e50476 ER - TY - Abstract A1 - Subramani, A A1 - Wei, Y A1 - Floudas, C T1 - ASTRO-FOLD 2.0: An enhanced framework for protein structure prediction Y1 - 2012/05/01 N1 - R832721 JF - AICHE JOURNAL J1 - AICHE J VL - 58 IS - 5 SP - 1619 EP - 1637 ER - TY - Abstract A1 - Wei, Y A1 - Floudas, C T1 - Enhanced inter-helical residue contact prediction in transmembrane proteins Y1 - 2011//01 N1 - R832721 JF - CHEMICAL ENGINEERING SCIENCE J1 - CHEM ENG SCI VL - 66 IS - 19 SP - 4356 EP - 4369 ER - TY - CHAP A1 - Bellows, M L A1 - Fung, H K A1 - Floudas, C A T1 - Recent advances in de novo protein design. Y1 - 2010// N1 - R832721 SP - 207 EP - 232 ER - TY - CHAP A1 - Floudas, C A A1 - Fung, H K T1 - Mathematical modeling and optimization methods for de novo protein design. Y1 - 2006/09/14 N1 - R832721C005 N1 - R832721 IS - Chapter 2 SP - 42 EP - 66 ER - TY - CHAP A1 - Floudas, C A A1 - Fung, H K A1 - Morikis, D A1 - Taylor, M S T1 - Overcoming the key challenges in de novo protein design: enhancing computational efficiency and incorporating true backbone flexibility. Y1 - 2008// N1 - R832721 VL - 102 SP - 133 EP - 183 ER - TY - CHAP A1 - Georgopoulos, P G A1 - Isukapalli, S S A1 - Krishnan, K T1 - Modeling exposures to chemicals from multiple sources and routes. Y1 - 2010/05/ N1 - R832721 N1 - R834547 SP - 315 EP - 351 ER - TY - CHAP A1 - Georgopoulos, P G A1 - Isukapalli, S A1 - Androulakis, I P A1 - Ierapetritou, M G A1 - Welsh, W J T1 - Multiscale integration of toxicokinetic and toxicodynamic processes: from cell and tissue to organ and “whole body” models. Y1 - 2011/04/ N1 - R832721 SP - 619 EP - 668 ER - TY - CHAP A1 - Isukapalli, S S A1 - Roy, A T1 - General principles of programming: computer and statistical. Y1 - 2007// N1 - R832721 N1 - R832721C001 IS - Chapter 2 SP - 25 EP - 52 PB - Wiley ER - TY - CHAP A1 - Isukapalli, S S A1 - Roy, A A1 - Georgopoulos, P G T1 - Physiologically based pharmacokinetic modeling: inhalation, ingestion, and dermal absorption. Y1 - 2007// N1 - R832721 N1 - R832721C001 IS - Chapter 43 SP - 1069 EP - 1106 PB - Wiley ER - TY - CHAP A1 - Isukapalli, S S A1 - Spendiff, M A1 - Georgopoulos, P G A1 - Krishnan, K T1 - Uncertainty, variability, and sensitivity analyses in simulation models. Y1 - 2010/03/30 N1 - R832721 SP - 429 EP - 458 ER - TY - CHAP A1 - Krishnan, K A1 - Isukapalli, S A1 - Boyd, J T1 - Evaluation of toxicological interactions for the dose-response assessment of chemical mixtures. Y1 - 2009/12/15 N1 - R832721 SP - 211 EP - 228 ER - TY - CHAP A1 - Krishnan, K A1 - Sasso, A A1 - Georgopoulos, P G T1 - Pharmacokinetic mechanisms of interactions in chemical mixtures. Y1 - 2010/12/28 N1 - R832721 SP - 235 EP - 252 ER - TY - CHAP A1 - Scheff, J D A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - Dynamic models of disease progression: toward a multiscale model of systemic inflammation in humans. Y1 - 2010/12/ N1 - R832721 SP - 321 EP - 368 ER - TY - CHAP A1 - Tan, M P A1 - Floudas, C A T1 - Gene clustering: a novel decomposition-based clustering approach: global optimum search with enhanced positioning. Y1 - 2009// N1 - R832721 SP - 1134 EP - 1145 ER - TY - CHAP A1 - Vallero, D A A1 - Isukapalli, S A1 - Zartarian, V G A1 - McCurdy, T R A1 - McKone, T A1 - Georgopoulos, P G A1 - Dary, C C T1 - Modeling and predicting pesticide exposures. Y1 - 2010// N1 - R832721 SP - 995 EP - 1020 ER - TY - CHAP A1 - Welsh, W J A1 - Tong, W A1 - Georgopoulos, P G T1 - Toxicoinformatics: an introduction. Y1 - 2007// N1 - R832721 N1 - R832721C004 N1 - R832721C001 IS - 6 SP - 151 EP - 181 PB - Wiley ER - TY - CONF A1 - Georgopoulos, P G T1 - Mechanistic studies of environmental causes of human disease: a bionetwork dynamics modeling approach. Y1 - 2008/06/29-3 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G A1 - Isukapalli, S S T1 - A unified multiscale field/network/agent based modeling framework for human and ecological health risk analysis. Y1 - 2009/09/2-6 N1 - R832721 ER - TY - CONF A1 - Isukapalli, S S A1 - Price, K A1 - Georgopoulos, P G A1 - Krishnan, K T1 - A physiologically-based algorithm for predicting internal dose of inhaled toluene: applications for high dose to low dose and rodent to human extrapolations. Y1 - 2008/04/14-17 N1 - R832721 SP - 583 EP - 588 ER - TY - CONF A1 - McAllister, S R A1 - Floudas, C A T1 - Alpha-helical topology and tertiary structure prediction in globular proteins. Y1 - 2007/12/12-14 N1 - R832721 SP - 4551 EP - 4556 ER - TY - CONF A1 - Miller, M A1 - Feng, X A1 - Li, G A1 - Rabitz, H T1 - Nonlinear bionetwork structure inference using the random sampling-high dimensional model representation (RS-HDMR) algorithm. Y1 - 2009/09/3-6 N1 - R832721 SP - 6412 EP - 6415 ER - TY - JOUR A1 - Ai, N A1 - Krasowski, M D A1 - Welsh, W J A1 - Ekins, S T1 - Understanding nuclear receptors using computational methods. Y1 - 2009/05/ N1 - R832721 JF - DRUG DISCOVERY TODAY J1 - DRUG DISCOV TODAY VL - 14 IS - 9-10 SP - 486 EP - 494 ER - TY - JOUR A1 - Almon, R R A1 - Yang, E A1 - Lai, W A1 - Androulakis, I P A1 - Ghimbovschi, S A1 - Hoffman, E P A1 - Jusko, W J A1 - DuBois, D C T1 - Relationships between circadian rhythms and modulation of gene expression by glucocorticoids in skeletal muscle. Y1 - 2008/10/ N1 - R832721 JF - AMERICAN JOURNAL OF PHYSIOLOGY-REGULATORY, INTEGRATIVE AND COMPARATIVE PHYSIOLOGY VL - 295 IS - 4 SP - R1031 EP - R1047 ER - TY - JOUR A1 - Almon, R R A1 - Yang, E A1 - Lai, W A1 - Androulakis, I P T1 - Circadian variations in liver gene expression: relationships to drug actions. Y1 - 2008/09/ N1 - R832721 JF - JOURNAL OF PHARMACOLOGY AND EXPERIMENTAL THERAPEUTICS J1 - J PHARMACOL EXP THER VL - 326 IS - 3 SP - 700 EP - 716 ER - TY - JOUR A1 - Androulakis, I P A1 - Yang, E A1 - Almon, R R T1 - Analysis of time-series gene expression data: methods, challenges, and opportunities. Y1 - 2007// N1 - R832721 JF - ANNUAL REVIEW OF BIOMEDICAL ENGINEERING J1 - ANNU REV BIOMED ENG VL - 9 SP - 205 EP - 228 ER - TY - JOUR A1 - Arora, S A1 - Wang, X A1 - Keenan, S A1 - Andaya, C A1 - Zhang, Q A1 - Peng, Y A1 - Welsh, W T1 - Novel Microtubule Polymerization Inhibitor with Potent Antiproliferative and Antitumor Activity Y1 - 2009/02/17 N1 - R832721 JF - CANCER RESEARCH J1 - CANCER RES VL - 69 IS - 5 SP - 1910 EP - 1915 ER - TY - JOUR A1 - Baliban, R C A1 - DiMaggio, P A A1 - Plazas-Mayorca, M D A1 - Young, N L A1 - Garcia, B A A1 - Floudas, C A T1 - A novel approach for untargeted post-translational modification identification using integer linear optimization and tandem mass spectrometry. Y1 - 2010/05/ N1 - R832721 VL - 9 IS - 5 SP - 764 EP - 779 ER - TY - JOUR A1 - Bellows, M L A1 - Fung, H K A1 - Taylor, M S A1 - Floudas, C A A1 - Lopez, D A1 - Morikis, D T1 - New compstatin variants through two de novo protein design frameworks. Y1 - 2010/05/19 N1 - R832721 VL - 98 IS - 10 SP - 2337 EP - 2346 ER - TY - JOUR A1 - Bellows, M A1 - Floutas, C T1 - Computational Methods for De novo Protein Design and its Applications to the Human Immunodeficiency Vir 1, Purine Nucleoside Phosphorylase, Ubiquitin Specific Protease 7, and Histone Demethylases Y1 - 2010//01 N1 - R832721 JF - CURRENT DRUG TARGETS VL - 11 IS - 3 SP - 264 EP - 278 ER - TY - JOUR A1 - Brell, G A1 - Li, G A1 - Rabitz, H T1 - An efficient algorithm to accelerate the discovery of complex material formulations. Y1 - 2010/05/7 N1 - R832721 VL - 132 IS - 17 SP - 174103 EP - 174110 ER - TY - JOUR A1 - Chekmarev, D S A1 - Kholodovych, V A1 - Balakin, K V A1 - Ivanenkov, Y A1 - Ekins, S A1 - Welch, W J T1 - Shape signatures: new descriptors for predicting cardiotoxicity in silico. Y1 - 2008/06/ N1 - R832721 JF - CHEMICAL RESEARCH IN TOXICOLOGY J1 - CHEM RES TOXICOL VL - 21 IS - 6 SP - 1304 EP - 1314 ER - TY - JOUR A1 - Chekmarev, D A1 - Kholodovych, V A1 - Kortagere, S A1 - Welsh, W J A1 - Ekins, S T1 - Predicting inhibitors of acetylcholinesterase by regression and classification machine learning approaches with combinations of molecular descriptors. Y1 - 2009/09/ N1 - R832721 JF - PHARMACEUTICAL RESEARCH J1 - PHARMACEUT RES VL - 26 IS - 9 SP - 2216 EP - 2224 ER - TY - JOUR A1 - Chen, M A1 - Martin, J A1 - Fang, H A1 - Isukapalli, S A1 - Georgopoulos, P G A1 - Welsh, W J A1 - Tong, W T1 - ebTrack: an environmental bioinformatics system built upon ArrayTrackTM. Y1 - 2009/03/10 N1 - R832721 JF - BMC PROCEEDINGS VL - 3 IS - Suppl 2 SP - S5 ER - TY - JOUR A1 - Cohen, H A1 - Richard, A A1 - Aylward, L A1 - Edwards, S A1 - Gallagher, J A1 - Goldsmith, M A1 - Isukapalli, S A1 - Tornero-Velez, R A1 - Weber, E A1 - Kavlock, R T1 - Advancing exposure characterization for chemical evaluation and risk assessment. Y1 - 2010/02/ N1 - R832721 VL - 13 IS - 2-4 SP - 299 EP - 313 ER - TY - JOUR A1 - Davis, E A1 - Ierapetritou, M T1 - A kriging method for the solution of nonlinear programs with black-box functions. Y1 - 2007// N1 - R832721 JF - AICHE JOURNAL J1 - AICHE J VL - 53 IS - 8 SP - 2001 EP - 2012 ER - TY - JOUR A1 - Davis, E A1 - Ierapetritou, M T1 - A kriging based method for the solution of mixed-integer nonlinear programs containing black-box functions Y1 - 2009//01 N1 - R832721 JF - JOURNAL OF GLOBAL OPTIMIZATION J1 - J GLOBAL OPTIM VL - 43 IS - 2-3 SP - 191 EP - 205 ER - TY - JOUR A1 - Davis, E A1 - Ierapetritou, M T1 - A centroid-based sampling strategy for kriging global modeling and optimization. Y1 - 2010/01/ N1 - R832721 JF - AICHE JOURNAL J1 - AICHE J VL - 56 IS - 1 SP - 220 EP - 240 ER - TY - JOUR A1 - DiMaggio, J A1 - Floudas, C A T1 - De novo peptide identification via tandem mass spectrometry and integer linear optimization. Y1 - 2007/02/15 N1 - R832721 JF - ANALYTICAL CHEMISTRY J1 - ANAL CHEM J2 - Analytical Chemistry VL - 79 IS - 4 SP - 1433 EP - 1446 ER - TY - JOUR A1 - DiMaggio, J A1 - Floudas, C A T1 - A mixed-integer optimization framework for de novo peptide identification. Y1 - 2007/01/1 N1 - R832721C005 N1 - R832721 JF - AICHE JOURNAL J1 - AICHE J VL - 53 IS - 1 SP - 160 EP - 173 ER - TY - JOUR A1 - DiMaggio, J A1 - Floudas, C A A1 - Lu, B W A1 - Yates, I T1 - A hybrid method for peptide identification using integer linear optimization, local database search, and quadrupole time-of-flight or OrbiTrap tandem mass spectrometry. Y1 - 2008/04/ N1 - R832721 JF - JOURNAL OF PROTEOME RESEARCH VL - 7 IS - 4 SP - 1584 EP - 1593 ER - TY - JOUR A1 - DiMaggio, J A1 - McAllister, S R A1 - Floudas, C A A1 - Feng, X A1 - Rabinowitz, J D A1 - Rabitz, H A T1 - Optimal methods for re-ordering data matrices in systems biology and drug discovery applications. Y1 - 2008/04/ N1 - R832721 JF - BIOPHYSICAL REVIEWS AND LETTERS VL - 3 IS - 1-2 SP - 19 EP - 42 ER - TY - JOUR A1 - DiMaggio, J A1 - McAllister, S R A1 - Floudas, C A A1 - Feng, X A1 - Rabinowitz, J D A1 - Rabitz, H A T1 - Biclustering via optimal re-ordering of data matrices in systems biology: rigorous methods and comparative studies. Y1 - 2008/10/27 N1 - R832721 JF - BMC BIOINFORMATICS VL - 9 SP - 458 EP - 473 ER - TY - JOUR A1 - DiMaggio, J A1 - McAllister, S R A1 - Floudas, C A A1 - Feng, X A1 - Rabinowitz, J D A1 - Rabitz, H A T1 - Enhancing molecular discovery using descriptor-free rearrangement clustering techniques for sparse data sets. Y1 - 2010/02/ N1 - R832721 VL - 56 IS - 2 SP - 405 EP - 418 ER - TY - JOUR A1 - DiMaggio, J A1 - McAllister, S R A1 - Floudas, C A A1 - Feng, X A1 - Rabinowitz, J D A1 - Rabitz, H A T1 - A network flow model for biclustering via optimal re-ordering of data matrices. Y1 - 2010/07/ N1 - R832721 JF - JOURNAL OF GLOBAL OPTIMIZATION J1 - J GLOBAL OPTIM VL - 47 IS - 3 SP - 343 EP - 354 ER - TY - JOUR A1 - DiMaggio, J A1 - Subramani, A A1 - Judson, R S A1 - Floudas, C A T1 - A novel framework for predicting in vivo toxicities from in vitro data using optimal methods for dense and sparse matrix re-ordering and logistic regression. Y1 - 2010/11/01 N1 - R832721 VL - 118 IS - 1 SP - 251 EP - 265 ER - TY - JOUR A1 - DiMaggio, P A A1 - Young, N L A1 - Baliban, R C A1 - Garcia, B A A1 - Floudas, C A T1 - A mixed integer linear optimization framework for the identification and quantification of targeted post-translational modifications of highly modified proteins using multiplexed electron transfer dissociation tandem mass spectrometry. Y1 - 2009/11/ N1 - R832721 VL - 8 IS - 11 SP - 2527 EP - 2543 ER - TY - JOUR A1 - Dong, X A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - Agent-based modeling of endotoxin-induced acute inflammatory response in human blood leukocytes. Y1 - 2010/02/18 N1 - R832721 VL - 5 IS - 2 SP - e9249 ER - TY - JOUR A1 - Efstathiou, C A1 - Isukapalli, S A1 - Georgopoulos, P T1 - A mechanistic modeling system for estimating large-scale emissions and transport of pollen and co-allergens. Y1 - 2011/04/1 N1 - R832721 N1 - R834547 VL - 45 IS - 13 SP - 2260 EP - 2276 ER - TY - JOUR A1 - Ekins, S A1 - Chang, C A1 - Mani, S A1 - Krasowski, M D A1 - Reschly, E J A1 - Iyer, M A1 - Kholodovych, V A1 - Ai, N A1 - Welsh, W J A1 - Sinz, M A1 - Swaan, P W A1 - Patel, R A1 - Bachmann, K T1 - Human pregnane X receptor antagonists and agonists define molecular requirements for different binding sites. Y1 - 2007/09/ N1 - R832721 JF - MOLECULAR PHARMACOLOGY J1 - MOL PHARMACOL VL - 72 IS - 3 SP - 592 EP - 603 ER - TY - JOUR A1 - Ekins, S A1 - Kholodovych, V A1 - Ai, N A1 - Sinz, M A1 - Gal, J A1 - Gera, L A1 - Welsh, W J A1 - Bachmann, K T1 - Computational discovery of novel low micromolar human pregnane X receptor antagonists. Y1 - 2008/09/ N1 - R832721 JF - MOLECULAR PHARMACOLOGY J1 - MOL PHARMACOL VL - 74 IS - 3 SP - 662 EP - 672 ER - TY - JOUR A1 - Feng, X A1 - Sanchis, J A1 - Reetz, M T A1 - Rabitz, H T1 - Enhancing the efficiency of directed evolution in focused enzyme libraries by the adaptive substituent reordering algorithm. Y1 - 2012/04/27 N1 - R832721 VL - 18 IS - 18 SP - 5646 EP - 5654 ER - TY - JOUR A1 - Floudas, C A T1 - Computational methods in protein structure prediction. Y1 - 2007// N1 - R832721 JF - BIOTECHNOLOGY AND BIOENGINEERING J1 - BIOTECHNOL BIOENG VL - 97 IS - 2 SP - 207 EP - 213 ER - TY - JOUR A1 - Foteinou, P T A1 - Yang, E A1 - Androulakis, I P T1 - Networks, biology and systems engineering: a case study in inflammation. Y1 - 2009/12/10 N1 - R832721 VL - 33 IS - 12 SP - 2028 EP - 2041 ER - TY - JOUR A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - Translational potential of systems-based models of inflammation. Y1 - 2009/02/ N1 - R832721 JF - CLINICAL AND TRANSLATIONAL SCIENCE VL - 2 IS - 1 SP - 85 EP - 89 ER - TY - JOUR A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - Modeling endotoxin-induced systemic inflammation using an indirect response approach. Y1 - 2009/01/ N1 - R832721 JF - MATHEMATICAL BIOSCIENCES J1 - MATH BIOSCI VL - 217 IS - 1 SP - 27 EP - 42 ER - TY - JOUR A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - In silico simulation of corticosteroids effect on an NFkB-dependent physicochemical model of systemic inflammation. Y1 - 2009/03/10 N1 - R832721 JF - PLOS ONE J1 - PLOS One VL - 4 IS - 3 SP - e4706 ER - TY - JOUR A1 - Foteinou, P T A1 - Yang, E A1 - Saharidis, G K A1 - Ierapetritou, M G A1 - Androulakis, I P T1 - A mixed-integer optimization framework for the synthesis and analysis of regulatory networks. Y1 - 2009/03/ N1 - R832721 JF - JOURNAL OF GLOBAL OPTIMIZATION J1 - J GLOBAL OPTIM VL - 43 IS - 2-3 SP - 263 EP - 276 ER - TY - JOUR A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - Multiscale model for the assessment of autonomic dysfunction in human endotoxemia. Y1 - 2010/06/ N1 - R832721 VL - 42 IS - 1 SP - 5 EP - 19 ER - TY - JOUR A1 - Foteinou, P A1 - Calvano, S A1 - Lowry, S A1 - Androulakis, I T1 - A physiological model for autonomic heart rate regulation in human endotoxemia Y1 - 2011//01 N1 - R832721 JF - SHOCK J1 - SHOCK VL - 35 IS - 3 SP - 229 EP - 239 ER - TY - JOUR A1 - Fung, H K A1 - Welsh, W J A1 - Floudas, C A T1 - Computational de novo peptide and protein design: rigid templates versus flexible templates. Y1 - 2008/02/20 N1 - R832721 JF - INDUSTRIAL & ENGINEERING CHEMISTRY RESEARCH VL - 47 IS - 4 SP - 993 EP - 1001 ER - TY - JOUR A1 - Fung, H K A1 - Floudas, C A A1 - Taylor, M S A1 - Zhang, L A1 - Morikis, D T1 - Toward full-sequence de novo protein design with flexible templates for human beta-defensin-2. Y1 - 2008/01/15 N1 - R832721 JF - BIOPHYSICAL JOURNAL J1 - BIOPHYS J J2 - BIOPHYSICAL JOURNAL VL - 94 IS - 2 SP - 584 EP - 599 ER - TY - JOUR A1 - Georgopoulos, P G T1 - A multiscale approach for assessing the interactions of environmental and biological systems in a holistic health risk assessment framework. Y1 - 2008/02/ N1 - R832721 N1 - R832721C001 JF - WATER, AIR, & SOIL POLLUTION: FOCUS VL - 8 IS - 1 SP - 3 EP - 21 ER - TY - JOUR A1 - Georgopoulos, P G A1 - Sasso, A F A1 - Isukapalli, S S A1 - Lioy, P J A1 - Vallero, D A A1 - Okino, M A1 - Reiter, L T1 - Response to "µg/kg-day or µg/day? A commentary on Georgopoulos et al., JESEE 2008." Y1 - 2008/11/ N1 - R832721 JF - JOURNAL OF EXPOSURE SCIENCE & ENVIRONMENTAL EPIDEMIOLOGY VL - 18 IS - 6 SP - 536 EP - 537 ER - TY - JOUR A1 - Georgopoulos, P G A1 - Wang, S W A1 - Yang, Y C A1 - Xue, J A1 - Zartarian, V G A1 - McCurdy, T A1 - Ozkaynak, H T1 - Biologically based modeling of multimedia, multipathway, multiroute population exposures to arsenic. Y1 - 2008/09/ N1 - R832721 JF - JOURNAL OF EXPOSURE SCIENCE & ENVIRONMENTAL EPIDEMIOLOGY VL - 18 IS - 5 SP - 462 EP - 476 ER - TY - JOUR A1 - Georgopoulos, P G A1 - Sasso, A F A1 - Isukapalli, S S A1 - Lioy, P J A1 - Vallero, D A A1 - Okino, M A1 - Reiter, L T1 - Reconstructing population exposures to environmental chemicals from biomarkers: challenges and opportunities. Y1 - 2009/02/ N1 - R832721 JF - JOURNAL OF EXPOSURE SCIENCE & ENVIRONMENTAL EPIDEMIOLOGY VL - 19 IS - 2 SP - 149 EP - 171 ER - TY - JOUR A1 - Gerecke, D R A1 - Chen, M A1 - Isukapalli, S S A1 - Gordon, M K A1 - Chang, Y A1 - Tong, W A1 - Androulakis, I P A1 - Georgopoulos, P G T1 - Differential gene expression profiling of mouse skin after sulfur mustard exposure: extended time response and inhibitor effect. Y1 - 2009/01/15 N1 - R832721 JF - TOXICOLOGY AND APPLIED PHARMACOLOGY J1 - TOXICOL APPL PHARM J2 - Toxicol.Appl.Pharmacol. J3 - Toxicol Appl Pharmacol J4 - Toxicology and Applied Pharmacology VL - 234 IS - 2 SP - 156 EP - 165 ER - TY - JOUR A1 - Halai, R A1 - Bellows-Peterson, M A1 - Branchett, W A1 - Smadbeck, J A1 - Kieslich, C A1 - Croker, D A1 - Cooper, M A1 - Morikis, D A1 - Woodruff, T A1 - Floudas, C A1 - Monk, P T1 - Derivation of ligands for the complement C3a receptor from the C-termin of C5a Y1 - 2014//15 N1 - R832721 JF - EUROPEAN JOURNAL OF PHARMACOLOGY J1 - EUR J PHARMACOL VL - 745 SP - 176 EP - 181 ER - TY - JOUR A1 - Isukapalli, S S A1 - Lioy, P J A1 - Georgopoulos, P G T1 - Mechanistic modeling of emergency events: assessing the impact of hypothetical releases of anthrax. Y1 - 2008/06/ N1 - R832721 JF - RISK ANALYSIS J1 - RISK ANAL VL - 28 IS - 3 SP - 723 EP - 740 ER - TY - JOUR A1 - Iyer, V V A1 - Ovacik, M A A1 - Androulakis, I P A1 - Roth, C M A1 - Ierapetritou, M G T1 - Transcriptional and metabolic flux profiling of triadimefon effects on cultured hepatocytes. Y1 - 2010/11/1 N1 - R832721 VL - 248 IS - 3 SP - 165 EP - 177 ER - TY - JOUR A1 - Iyer, V V A1 - Yang, H A1 - Ierapetritou, M G A1 - Roth, C M T1 - Effects of glucose and insulin on HepG2-C3A cell metabolism. Y1 - 2010/10/1 N1 - R832721 JF - BIOTECHNOLOGY AND BIOENGINEERING J1 - BIOTECHNOL BIOENG VL - 107 IS - 2 SP - 347 EP - 356 ER - TY - JOUR A1 - Izmailov, S A1 - Feng, X J A1 - Li, G A1 - Rabitz, H T1 - A scalable algorithm for molecular property estimation in high dimensional scaffold-based libraries. Y1 - 2012/08/ N1 - R832721 VL - 50 IS - 7 SP - 1765 EP - 1790 ER - TY - JOUR A1 - Jiao, Y A1 - Su, M A1 - Chen, M A1 - Jia, W A1 - Chou, Y A1 - Huang, Z A1 - Yang, N A1 - Tong, W T1 - LC/ESI-MS method for the determination of trimetazidine in human plasma: application to a bioequivalence study on Chinese volunteers. Y1 - 2007/04/11 N1 - R832721 JF - JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS J1 - J PHARMACEUT BIOMED VL - 43 IS - 5 SP - 1804 EP - 1807 ER - TY - JOUR A1 - Jornsten, R A1 - Ouyang, M A1 - Wang, H T1 - A meta-data based method for DNA microarray imputation. Y1 - 2007/03/29 N1 - R832721 JF - BMC BIOINFORMATICS VL - 8 SP - 109 ER - TY - JOUR A1 - Jornsten, R A1 - Keles, S T1 - Mixture models with multiple levels, with application to the analysis of multifactor gene expression data. Y1 - 2008/07/ N1 - R832721 JF - BIOSTATISTICS J1 - Biostatistics (Oxford, England) VL - 9 IS - 3 SP - 540 EP - 554 ER - TY - JOUR A1 - Jornsten, R T1 - Simultaneous model selection via rate-distortion theory, with applications to cluster and significance analysis of gene expression data. Y1 - 2009// N1 - R832721 JF - JOURNAL OF COMPUTATIONAL & GRAPHICAL STATISTICS VL - 18 IS - 3 SP - 613 EP - 639 ER - TY - JOUR A1 - Kortagere, S A1 - Chekmarev, D A1 - Welsh, W A1 - Ekins, S T1 - Hybrid Scoring and Classification Approaches to Predict Human Pregnane X Receptor Activators Y1 - 2008/12/30 N1 - R832721 JF - PHARMACEUTICAL RESEARCH J1 - PHARMACEUT RES VL - 26 IS - 4 SP - 1001 EP - 1011 ER - TY - JOUR A1 - Kortagere, S A1 - Chekmarev, D A1 - Welsh, W J A1 - Ekins, S T1 - New predictive models for blood-brain barrier permeability of drug-like molecules. Y1 - 2008/08/ N1 - R832721 JF - PHARMACEUTICAL RESEARCH J1 - PHARMACEUT RES VL - 25 IS - 8 SP - 1836 EP - 1845 ER - TY - JOUR A1 - Kortagere, S A1 - Ekins, S A1 - Welsh, W J T1 - Halogenated ligands and their interactions with amino acids: implications for structure-activity and structure-toxicity relationships. Y1 - 2008/09/ N1 - R832721 JF - JOURNAL OF MOLECULAR GRAPHICS AND MODELLING J1 - NONE VL - 27 IS - 2 SP - 170 EP - 177 ER - TY - JOUR A1 - Kortagere, S A1 - Welsh, W A1 - Morrisey, J A1 - Daly, T A1 - Ejigiri, I A1 - Sinnis, P A1 - Vaidya, A A1 - Bergman, L T1 - Structure-based Design of Novel Small-Molecule Inhibitors of Plasmodium falciparum Y1 - 2010/04/28 N1 - R832721 JF - JOURNAL OF CHEMICAL INFORMATION AND MODELING J1 - Journal of Chemical Information and Modeling J2 - Journal of Chemical Information and Modeling VL - 50 IS - 5 SP - 840 EP - 849 ER - TY - JOUR A1 - Lerapetritou, M G A1 - Georgopoulos, P G A1 - Roth, C M A1 - Androulakis, I P T1 - Tissue-level modeling of xenobiotic metabolism in liver: an emerging tool for enabling clinical translational research. Y1 - 2009/06/13 N1 - R832721 JF - CLINICAL AND TRANSLATIONAL SCIENCE VL - 2 IS - 3 SP - 228 EP - 237 ER - TY - JOUR A1 - Li, C A1 - Ai, N A1 - Dinh, G A1 - Welsh, W A1 - Chen, J T1 - Human ADA3 regulates RARα transcriptional activity through direct contact between LxxLL motifs and the receptor coactivator pocket Y1 - 2010/09/01 N1 - R832721 JF - NUCLEIC ACIDS RESEARCH J1 - NUCLEIC ACIDS RES VL - 38 IS - 16 SP - 5291 EP - 5303 ER - TY - JOUR A1 - Li, C-W A1 - Ai, N A1 - Dinh, G K A1 - Welsh, W J A1 - Chen, J D T1 - Human ADA3 regulates RARα transcriptional activity through direct contact between LxxLL motifs and the receptor coactivator pocket. Y1 - 2010/09/ N1 - R832721 JF - NUCLEIC ACIDS RESEARCH J1 - NUCLEIC ACIDS RES VL - 38 IS - 16 SP - 5291 EP - 5303 ER - TY - JOUR A1 - Li, G A1 - Rabitz, H A1 - Hu, J A1 - Chen, Z A1 - Ju, Y T1 - Regularized random-sampling high dimensional model representation (RS-HDMR). Y1 - 2008/03/ N1 - R832721 JF - JOURNAL OF MATHEMATICAL CHEMISTRY J1 - J MATH CHEM VL - 43 IS - 3 SP - 1207 EP - 1232 ER - TY - JOUR A1 - Li, G A1 - Rabitz, H A1 - Yelvington, P E A1 - Oluwole, O O A1 - Bacon, F A1 - Kolb, C E A1 - Schoendorf, J T1 - Global sensitivity analysis for systems with independent and/or correlated inputs. Y1 - 2010/05/20 N1 - R835826 N1 - R832721 VL - 114 IS - 19 SP - 6022 EP - 6032 ER - TY - JOUR A1 - Li, G A1 - Rabitz, H T1 - D-MORPH regression: application to modeling with unknown parameters more than observation data. Y1 - 2010/11/ N1 - R832721 VL - 48 IS - 4 SP - 1010 EP - 1035 ER - TY - JOUR A1 - Lin, Y A1 - Yassuda, K A1 - Assem, M A1 - Cline, C A1 - Barber, J A1 - Li, C A1 - Kholodovych, V A1 - Ai, N A1 - Chen, J A1 - Welsh, W A1 - Ekins, S A1 - Schuetz, E T1 - The Major Human Pregnane X Receptor PXR Splice Variant, PXR.2, Exhibits Significantly Diminished Ligand-Activated Transcriptional Regulation Y1 - 2009/06/01 N1 - R832721 VL - 37 IS - 6 SP - 1295 EP - 1304 ER - TY - JOUR A1 - McAllister, S R A1 - Mickus, B E A1 - Klepeis, J L A1 - Floudas, C A T1 - Novel approach for α-helical topology prediction in globular proteins: generation of interhelical restraints. Y1 - 2006/12/1 N1 - R832721 JF - PROTEINS: STRUCTURE, FUNCTION, AND BIOINFORMATICS VL - 65 IS - 4 SP - 930 EP - 952 ER - TY - JOUR A1 - McAllister, S R A1 - Floudas, C A T1 - α-helical topology prediction and generation of distance restraints in membrane proteins. Y1 - 2008/12/01 N1 - R832721 VL - 95 IS - 11 SP - 5281 EP - 5295 ER - TY - JOUR A1 - McAllister, S R A1 - Rajgaria, R A1 - Floudas, C A T1 - A path selection approach to global pairwise sequence alignment using integer linear optimization. Y1 - 2008/02/ N1 - R832721 JF - OPTIMIZATION J1 - LECT NOTES ECON MATH J2 - OPTIMIZATION VL - 57 IS - 1 SP - 101 EP - 111 ER - TY - JOUR A1 - McAllister, S R A1 - Feng, X A1 - DiMaggio, J A1 - Floudas, C A A1 - Rabinowitz, J D A1 - Rabitz, H T1 - Descriptor-free molecular discovery in large libraries by adaptive substituent reordering. Y1 - 2008/11/15 N1 - R832721 JF - BIOORGANIC & MEDICINAL CHEMISTRY LETTERS J1 - BIOORG MED CHEM LETT VL - 18 IS - 22 SP - 5967 EP - 5970 ER - TY - JOUR A1 - McAllister, S R A1 - Floudas, C A T1 - Enhanced bounding techniques to reduce the protein conformational search space. Y1 - 2009/08/ N1 - R832721 JF - OPTIMIZATION METHODS & SOFTWARE J1 - OPTIM METHOD SOFTW VL - 24 IS - 4-5 SP - 837 EP - 855 ER - TY - JOUR A1 - McAllister, S R A1 - DiMaggio, J A1 - Floudas, C A T1 - Mathematical modeling and efficient optimization methods for the distance-dependent rearrangement clustering problem. Y1 - 2009/09/ N1 - R832721 JF - JOURNAL OF GLOBAL OPTIMIZATION J1 - J GLOBAL OPTIM VL - 45 IS - 1 SP - 111 EP - 129 ER - TY - JOUR A1 - McAllister, S R A1 - Floudas, C A T1 - An improved hybrid global optimization method for protein tertiary structure prediction. Y1 - 2010/03/1 N1 - R832721 JF - COMPUTATIONAL OPTIMIZATION AND APPLICATIONS J1 - COMPUT OPTIM APPL VL - 45 IS - 2 SP - 377 EP - 413 ER - TY - JOUR A1 - Nguyen, T T A1 - Nowakowski, R S A1 - Androulakis, I P T1 - Unsupervised selection of highly coexpressed and noncoexpressed genes using a consensus clustering approach. Y1 - 2009/06/ N1 - R832721 JF - OMICS VL - 13 IS - 3 SP - 219 EP - 237 ER - TY - JOUR A1 - Nguyen, T T A1 - Almon, R R A1 - Dubois, D C A1 - Jusko, W J A1 - Androulakis, I P T1 - Importance of replication in analyzing time-series gene expression data: corticosteroid dynamics and circadian patterns in rat liver. Y1 - 2010/05/26 N1 - R832721 VL - 11 SP - 279 ER - TY - JOUR A1 - Nguyen, T T A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - Computational identification of transcriptional regulators in human endotoxemia. Y1 - 2011/05/27 N1 - R832721 VL - 6 IS - 5 SP - e18889 ER - TY - JOUR A1 - Nguyen, T A1 - Almon, R A1 - DuBois, D A1 - Jko, W A1 - Androulakis, I T1 - Comparative analysis of acute and chronic corticosteroid pharmacogenomic effects in rat liver: Transcriptional dynamics and regulatory structures Y1 - 2010//14 N1 - R832721 JF - BMC BIOINFORMATICS VL - 11 SP - 515 ER - TY - JOUR A1 - Oelschlaeger, P A1 - Ai, N A1 - DuPrez, K T A1 - Welsh, W J A1 - Toney, J H T1 - Evolving carbapenemases: can medicinal chemists advance one step ahead of the coming storm? Y1 - 2010/04/22 N1 - R832721 VL - 53 IS - 8 SP - 3013 EP - 3027 ER - TY - JOUR A1 - Orman, M A1 - Arai, K A1 - Yarmush, M A1 - Androulakis, I A1 - Berthiaume, F A1 - Ierapetritou, M T1 - Metabolic flux determination in perfused livers by mass balance analysis: Effect of fasting Y1 - 2010/12/01 N1 - R832721 JF - BIOTECHNOLOGY AND BIOENGINEERING J1 - BIOTECHNOL BIOENG VL - 107 IS - 5 SP - 825 EP - 835 ER - TY - JOUR A1 - Ovacik, M A A1 - Androulakis, I P T1 - On the potential for integrating gene expression and metabolic flux data. Y1 - 2008/09/ N1 - R832721 JF - CURRENT BIOINFORMATICS VL - 3 IS - 3 SP - 142 EP - 148 ER - TY - JOUR A1 - Ovacik, M A A1 - Sukumaran, S A1 - Almon, R R A1 - Dubois, D C A1 - Jusko, W J A1 - Androulakis, I P T1 - Circadian signatures in rat liver: from gene expression to pathways. Y1 - 2010/11/1 N1 - R832721 JF - BMC BIOINFORMATICS VL - 11 SP - 540 ER - TY - JOUR A1 - Ovacik, M A A1 - Androulakis, I P T1 - Enzyme sequence similarity improves the reaction alignment method for cross-species pathway comparison. Y1 - 2013/09/15 N1 - R832721 JF - TOXICOLOGY AND APPLIED PHARMACOLOGY J1 - TOXICOL APPL PHARM J2 - Toxicol.Appl.Pharmacol. J3 - Toxicol Appl Pharmacol J4 - Toxicology and Applied Pharmacology VL - 271 IS - 3 SP - 363 EP - 371 ER - TY - JOUR A1 - Ovacik, M A A1 - Sen, B A1 - Euling, S Y A1 - Gaido, K W A1 - Ierapetritou, M G A1 - Androulakis, I P T1 - Pathway modeling of microarray data: a case study of pathway activity changes in the testis following in utero exposure to dibutyl phthalate (DBP). Y1 - 2013/09/15 N1 - R832721 VL - 271 IS - 3 SP - 386 EP - 394 ER - TY - JOUR A1 - Piazza, M A1 - Feng, X L A1 - Rabinowitz, J D A1 - Rabitz, H T1 - Diverse metabolic model parameters generate similar methionine cycle dynamics. Y1 - 2008/04/21 N1 - R832721 JF - JOURNAL OF THEORETICAL BIOLOGY J1 - J THEOR BIOL VL - 251 IS - 4 SP - 628 EP - 639 ER - TY - JOUR A1 - Rabinowitz, J D A1 - Hsiao, J J A1 - Gryncel, K R A1 - Kantrowitz, E R A1 - Feng, X J A1 - Li, G A1 - Rabitz, H T1 - Dissecting enzyme regulation by multiple allosteric effectors: nucleotide regulation of aspartate transcarbamoylase. Y1 - 2008/05/27 N1 - R832721 JF - BIOCHEMISTRY J1 - BIOCHEMISTRY-US VL - 47 IS - 21 SP - 5881 EP - 5888 ER - TY - JOUR A1 - Rajgaria, R A1 - McAllister, S R A1 - Floudas, C A T1 - A novel high resolution Cα—Cα distance dependent force field based on a high quality decoy set. Y1 - 2006/11/15 N1 - R832721C005 N1 - R832721 JF - PROTEINS: STRUCTURE, FUNCTION, AND BIOINFORMATICS VL - 65 IS - 3 SP - 726 EP - 741 ER - TY - JOUR A1 - Rajgaria, R A1 - McAllister, S R A1 - Floudas, C A T1 - Distance dependent centroid to centroid force fields using high resolution decoys. Y1 - 2008/02/15 N1 - R832721 JF - PROTEINS: STRUCTURE, FUNCTION, BIOINFORMATICS VL - 70 IS - 3 SP - 950 EP - 970 ER - TY - JOUR A1 - Rajgaria, R A1 - McAllister, S R A1 - Floudas, C A T1 - Towards accurate residue-residue hydrophobic contact prediction for α helical proteins via integer linear optimization. Y1 - 2009/03/ N1 - R832721 JF - PROTEINS: STRUCTURE, FUNCTION, BIOINFORMATICS VL - 74 IS - 4 SP - 929 EP - 947 ER - TY - JOUR A1 - Rajgaria, R A1 - Wei, Y A1 - Floudas, C A T1 - Contact prediction for beta and alpha-beta proteins using integer linear optimization and its impact on the first principles 3D structure prediction method ASTRO-FOLD. Y1 - 2010/06/ N1 - R832721 VL - 78 IS - 8 SP - 1825 EP - 1846 ER - TY - JOUR A1 - Reschly, E J A1 - Ai, N A1 - Ekins, S A1 - Welsh, W J A1 - Hagey, L R A1 - Hofmann, A F A1 - Krasowski, M D T1 - Evolution of the bile salt nuclear receptor FXR in vertebrates. 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Y1 - 2009/05/ N1 - R832721 JF - JOURNAL OF GLOBAL OPTIMIZATION J1 - J GLOBAL OPTIM VL - 44 IS - 1 SP - 29 EP - 51 ER - TY - JOUR A1 - Saharidis, G A1 - Androulakis, I A1 - Ierapetritou, M T1 - Model building using bi-level optimization Y1 - 2011//01 N1 - R832721 JF - JOURNAL OF GLOBAL OPTIMIZATION J1 - J GLOBAL OPTIM VL - 49 IS - 1 SP - 49 EP - 67 ER - TY - JOUR A1 - Sasso, A F A1 - Isukapalli, S S A1 - Georgopoulos, P G T1 - A generalized physiologically-based toxicokinetic modeling system for chemical mixtures containing metals. Y1 - 2010/06/2 N1 - R832721 VL - 7 SP - 17 ER - TY - JOUR A1 - Sasso, A F A1 - Georgopoulos, P G A1 - Isukapalli, S S A1 - Krishnan, K T1 - Bayesian analysis of a lipid-based physiologically based toxicokinetic model for a mixture of PCBs in rats. Y1 - 2012/01/19 N1 - R832721 JF - JOURNAL OF TOXICOLOGY VL - 2012 SP - 895391 ER - TY - JOUR A1 - Scheff, J D A1 - Almon, R R A1 - Dubois, D C A1 - Jusko, W J A1 - Androulakis, I P T1 - A new symbolic representation for the identification of informative genes in replicated microarray experiments. Y1 - 2010/06/ N1 - R832721 VL - 14 IS - 3 SP - 239 EP - 248 ER - TY - JOUR A1 - Schnackenberg, L K A1 - Chen, M A1 - Sun, J A1 - Holland, R D A1 - Dragan, Y A1 - Tong, W A1 - Welsh, W A1 - Beger, R D T1 - Evaluations of the trans-sulfuration pathway in multiple liver toxicity studies. Y1 - 2009/02/15 N1 - R832721 JF - TOXICOLOGY AND APPLIED PHARMACOLOGY J1 - TOXICOL APPL PHARM J2 - Toxicol.Appl.Pharmacol. J3 - Toxicol Appl Pharmacol J4 - Toxicology and Applied Pharmacology VL - 235 IS - 1 SP - 25 EP - 32 ER - TY - JOUR A1 - Stamatelos, S K A1 - Brinkerhoff, C J A1 - Isukapalli, S S A1 - Georgopoulos, P G T1 - Mathematical model of uptake and metabolism of arsenic(III) in human hepatocytes – incorporation of cellular antioxidant response and threshold-dependent behavior. Y1 - 2011/01/25 N1 - R832721 VL - 5 SP - 16 ER - TY - JOUR A1 - Stamatelos, S A1 - Androulakis, I A1 - Kong, A A1 - Georgopoulos, P T1 - A semi-mechanistic integrated toxicokinetic-toxicodynamic (TK/TD) model for arsenic(III) in hepatocytes. Y1 - 2013/01/21 N1 - R832721 JF - JOURNAL OF THEORETICAL BIOLOGY J1 - J THEOR BIOL VL - 317 SP - 244 EP - 256 ER - TY - JOUR A1 - Subramani, A A1 - DiMaggio, P A1 - Floudas, C T1 - Selecting High Quality Protein Structures from Diverse Conformational Ensembles Y1 - 2009//16 N1 - R832721 JF - BIOPHYSICAL JOURNAL J1 - BIOPHYS J J2 - BIOPHYSICAL JOURNAL VL - 97 IS - 6 SP - 1728 EP - 1736 ER - TY - JOUR A1 - Sun, J A1 - Abdeljabbar, D M A1 - Clarke, N A1 - Bellows, M L A1 - Floudas, C A A1 - Link, A J T1 - Reconstitution and engineering of apoptotic protein interactions on the bacterial cell surface. Y1 - 2009/11/27 N1 - R832721 VL - 394 IS - 2 SP - 297 EP - 305 ER - TY - JOUR A1 - Tan, M P A1 - Smith, E N A1 - Broach, J R A1 - Floudas, C A T1 - Microarray data mining: a novel optimization-based approach to uncover biologically coherent structures. Y1 - 2008/06/6 N1 - R832721 JF - BMC BIOINFORMATICS VL - 9 SP - 268 EP - 289 ER - TY - JOUR A1 - Taylor, M S A1 - Fung, H K A1 - Rajgaria, R A1 - Filizola, M A1 - Weinstein, H A1 - Floudas, C A T1 - Mutations affecting the oligomerization interface of G-protein-coupled receptors revealed by a novel de novo protein design framework. Y1 - 2008/04/1 N1 - R832721 JF - BIOPHYSICAL JOURNAL J1 - BIOPHYS J J2 - BIOPHYSICAL JOURNAL VL - 94 IS - 7 SP - 2470 EP - 2481 ER - TY - JOUR A1 - Xue, J A1 - Zartarian, V A1 - Wang, S A1 - Liu, S V A1 - Georgopoulos, P T1 - Probabilistic modeling of dietary arsenic exposure and dose and evaluation with 2003-2004 NHANES data. Y1 - 2010/03/ N1 - R832721 VL - 118 IS - 3 SP - 345 EP - 350 ER - TY - JOUR A1 - Yang, E H A1 - Almon, R R A1 - Dubois, D C A1 - Jusko, W J A1 - Androulakis, I P T1 - Identification of global transcriptional dynamics. Y1 - 2009/07/10 N1 - R832721 JF - PLOS ONE J1 - PLOS One VL - 4 IS - 7 SP - e5992 ER - TY - JOUR A1 - Yang, E A1 - Maguire, T A1 - Yarmush, M L A1 - Berthiaume, F A1 - Androulakis, I P T1 - Bioinformatics analysis of the early inflammatory response in a rat thermal injury model. Y1 - 2007/01/10 N1 - R832721 JF - BMC BIOINFORMATICS VL - 8 SP - 10 ER - TY - JOUR A1 - Yang, E A1 - Simcha, D A1 - Almon, R R A1 - Dubois, D C A1 - Jusko, W J A1 - Androulakis, I P T1 - Context specific transcription factor prediction. Y1 - 2007/06/ N1 - R832721 JF - ANNALS OF BIOMEDICAL ENGINEERING J1 - ANN BIOMED ENG VL - 35 IS - 6 SP - 1053 EP - 1067 ER - TY - JOUR A1 - Yang, E A1 - Foteinou, P T A1 - King, K R A1 - Yarmush, M L A1 - Androulakis, I P T1 - A novel non-overlapping bi-clustering algorithm for network generation using living cell array data. Y1 - 2007/09/1 N1 - R832721 JF - BIOINFORMATICS J1 - LECT NOTES COMPUT SC J2 - BIOINFORMATICS J3 - METHOD BIOCHEM ANAL VL - 23 IS - 17 SP - 2306 EP - 2313 ER - TY - JOUR A1 - Yang, E A1 - Maguire, T A1 - Yarmush, M L A1 - Androulakis, I P T1 - Informative gene selection and design of regulatory networks using integer optimization. Y1 - 2008/04/5 N1 - R832721 JF - COMPUTERS & CHEMICAL ENGINEERING VL - 32 IS - 4-5 SP - 633 EP - 649 ER - TY - JOUR A1 - Yang, E A1 - Maguire, T J A1 - Yarmush, M L A1 - Berthiaume, F A1 - Androulakis, I P T1 - Identification of regulatory mechanisms of the hepatic response to thermal injury. Y1 - 2008/01/ N1 - R832721 JF - COMPUTERS & CHEMICAL ENGINEERING VL - 32 IS - 1-2 SP - 356 EP - 369 ER - TY - JOUR A1 - Yang, E A1 - Almon, R R A1 - DuBois, D C A1 - Jusko, W J A1 - Androulakis, I P T1 - Extracting global system dynamics of corticosteroid genomic effects in rat liver. Y1 - 2008/03/ N1 - R832721 JF - JOURNAL OF PHARMACOLOGY AND EXPERIMENTAL THERAPEUTICS J1 - J PHARMACOL EXP THER VL - 324 IS - 3 SP - 1243 EP - 1254 ER - TY - JOUR A1 - Yang, E A1 - Androulakis, I P T1 - Assessing and selecting gene expression signals based upon the quality of the measured dynamics. Y1 - 2009/02/10 N1 - R832721 JF - BMC BIOINFORMATICS VL - 10 SP - 55 EP - 67 ER - TY - JOUR A1 - Yang, E A1 - Yarmush, M L A1 - Androulakis, I P T1 - Transcription factor network reconstruction using the living cell array. Y1 - 2009/02/7 N1 - R832721 JF - JOURNAL OF THEORETICAL BIOLOGY J1 - J THEOR BIOL VL - 256 IS - 3 SP - 393 EP - 407 ER - TY - JOUR A1 - Yang, H A1 - Roth, C M A1 - Ierapetritou, M G T1 - A rational design approach for amino acid supplementation in hepatocyte culture. Y1 - 2009/08/15 N1 - R832721 JF - BIOTECHNOLOGY AND BIOENGINEERING J1 - BIOTECHNOL BIOENG VL - 103 IS - 6 SP - 1176 EP - 1191 ER - TY - JOUR A1 - Yang, H A1 - Ierapetritou, M G A1 - Roth, C M T1 - Effects of amino acid transport limitations on cultured hepatocytes. Y1 - 2010/11/ N1 - R832721 JF - BIOPHYSICAL CHEMISTRY J1 - BIOPHYS CHEM VL - 152 IS - 1-3 SP - 89 EP - 98 ER - TY - JOUR A1 - Yang, H A1 - Roth, C M A1 - Ierapetritou, M G T1 - Analysis of amino acid supplementation effects on hepatocyte cultures using flux balance analysis. Y1 - 2011/07/ N1 - R832721 JF - OMICS VL - 15 IS - 7-8 SP - 449 EP - 460 ER - TY - JOUR A1 - Yang, Y A1 - Xu, X A1 - Georgopoulos, P G T1 - A Bayesian population PBPK model for multiroute chloroform exposure. Y1 - 2010/06/ N1 - R832721 JF - JOURNAL OF EXPOSURE SCIENCE AND ENVIRONMENTAL EPIDEMIOLOGY J1 - JOURNAL OF EXPOSURE SCIENCE AND ENVIRONMENTAL EPIDEMIOLOGY J2 - JOURNAL OF EXPOSURE SCIENCE AND ENVIRONMENTAL EPIDEMIOLOGY VL - 20 IS - 4 SP - 326 EP - 341 ER - TY - JOUR A1 - Yuan, J A1 - Doucette, C A1 - Fowler, W A1 - Feng, X A1 - Piazza, M A1 - Rabitz, H A1 - Wingreen, N A1 - Rabinowitz, J T1 - Metabolomics-driven quantitative analysis of ammonia assimilation in E. coli Y1 - 2009//01 N1 - R832721 JF - MOLECULAR SYSTEMS BIOLOGY VL - 5 IS - 302 ER - TY - CONF A1 - Ai, N A1 - Yu, S A1 - Delisle, R K A1 - Welsh, W J T1 - Computational models for predicting the binding affinities of ligands for the androgen receptor. Y1 - 2006/11/17 N1 - R832721 N1 - R826133 ER - TY - CONF A1 - Ai, N A1 - Chekmarev, D A1 - Zhang, P A1 - Kholodovych, V A1 - Welsh, W J T1 - Shape signatures database of PDB-extracted ligands for computational toxicology. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Ai, N A1 - Reschly, E J A1 - Krasowski, M D A1 - Hagey, L R T1 - Understanding co-evolution of nuclear receptors using computational methods. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Androulakis, I T1 - From data to models: systems toxicology linkages to toxicoinformatics. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Androulakis, I T1 - From data to models: systems biology methods and potential applications to toxicoinformatics. Y1 - 2008/03/12 N1 - R832721 ER - TY - CONF A1 - Bellows, M L A1 - Floudas, C A T1 - A novel framework for de novo protein design and its applications. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Brinkerhoff, C J A1 - Stamatelos, S A1 - Isukapalli, S S A1 - Georgopoulos, P G T1 - Pharmacokinetic model of uptake and metabolism of arsenicals in hepatocytes with implications for reactive oxygen species generation and hepatocarcinogenesis. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Brinkerhoff, C J A1 - Georgopoulos, P G T1 - Linking exposure dynamics with health effects through biological modeling: case study with TCE exposure and oxidative stress. Y1 - 2009/11/1-5 N1 - R832721 ER - TY - CONF A1 - Brinkerhoff, C J A1 - Isukapalli, S S A1 - Georgopoulos, P G T1 - Integrative modeling of chemically induced oxidative stress: a case study with trichloroethylene. Y1 - 2009/10/28-30 N1 - R832721 ER - TY - CONF A1 - Chekmarev, D A1 - Ai, N A1 - Kholodovych, V A1 - Kortagere, S A1 - Welsh, W J T1 - Shape signatures: a novel tool for computational toxicology. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Chekmarev, D A1 - Ai, N A1 - Kholodovych, V A1 - Kortagere, S A1 - Welsh, W J T1 - Progress in development of the shape signatures tool for computational toxicology. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Chen, M A1 - Tong, W A1 - Welsh, W A1 - Georgopoulos, P G T1 - Gene expression profiles of rodent pulmonary tissue following sulfur mustard exposure using ArrayTrack. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Chen, M A1 - Isukapalli, S S A1 - Georgopoulos, P G A1 - Welsh, W J T1 - ebTrack: an environmental bioinformatics system built upon ArrayTrack. Y1 - 2007/10/25-26 N1 - R832721 ER - TY - CONF A1 - Chen, M A1 - Schnackenberg, L A1 - Guo, L A1 - Holland, R T1 - Progress in developing infrastructure for a virtual liver II: multi-scale studies of hepatotoxicants for elucidating potential biomarkers and important pathways related to hepatotoxicity. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Chen, M A1 - Schnackenberg, L K A1 - Guo, L A1 - Holland, R T1 - Toxicogenomic studies reveal biosynthetic pathway of S-adenosylmethione as a possible hepatotoxic mechanism. Y1 - 2008/02/23-24 N1 - R832721 ER - TY - CONF A1 - Chen, M A1 - Schnackenberg, L K A1 - Holland, R A1 - Beger, R D T1 - Toxicogenomics studies of the transsulfuration pathway as a possible mechanism for liver toxicity. Y1 - 2008/03/16-20 N1 - R832721 ER - TY - CONF A1 - Dary, C C A1 - Geogopoulus, P G A1 - Vallero, D A A1 - Tornero-Valez, R T1 - Characterizing chemical exposure from biomonitoring data using the Exposure Related Dose Estimating Model (ERDEM). Y1 - 2007/10/14-18 N1 - R832721 ER - TY - CONF A1 - DiMaggio, P A A1 - Floudas, C A T1 - De novo peptide identification via tandem mass spectrometry and mixed-integer linear optimization. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - DiMaggio, P A A1 - Tan, M P A1 - Floudas, C A T1 - Optimization tools for the identification of (I) peptides and proteins, and (II) gene clusters. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - DiMaggio, P A A1 - Floudas, C A T1 - Optimization tools for in silico proteomics. Info on Informatics Seminar Series. Y1 - 2007/03/14 N1 - R832721 ER - TY - CONF A1 - DiMaggio, P A A1 - Floudas, C A A1 - Salinas, K A1 - Hemmer, M T1 - In silico and experimental methodologies for tandem mass spectrometry-based proteomics. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - DiMaggio, P A A1 - Floudas, C A A1 - Feng, X J A1 - Rabinowitz, H A T1 - Biclustering via optimal re-ordering of data matrices in systems biology. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Dong, X A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - Agent-based imulation of endotoxin induced acute inflammatory response in human blood leukocytes. Y1 - 2009/11/8-13 N1 - R832721 ER - TY - CONF A1 - Dong, X A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - Agent-based simulation of endotoxin induced acute inflammatory response in human blood leukocytes. Y1 - 2009/10/7-10 N1 - R832721 ER - TY - CONF A1 - Ekins, S T1 - Computational toxicology: new methods and models at the molecular level. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Euling, S Y A1 - Makris, S A1 - Sen, B A1 - Kim, A S A1 - Benson, B A1 - Gaido, K W A1 - Wilson, V S A1 - Keshava, C A1 - Keshava, N A1 - White, L A1 - Foster, P M A1 - Androulakis, I P A1 - Ovacik, M A1 - Ierapetritou, M G A1 - Gray, L E A1 - Thompson, C A1 - Barone, S A1 - Chiu, W A1 - Welsh, W A1 - Georgopoulos, P G T1 - Use of toxicogenomics data in risk assessment: a case study on dibutyl phthalate and male reproductive developmental effects. Y1 - 2007/03/25-29 N1 - R832721 ER - TY - CONF A1 - Euling, S A1 - Sen, B A1 - Welsh, W A1 - Georgopoulos, P G A1 - Ovacik, M A1 - Ierapetritou, M G A1 - Androulakis, I T1 - Expression profiling to assess developmental effects of exposure to DBP. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Euling, S A1 - Sen, B A1 - Welsh, W A1 - Georgopoulos, P G A1 - Ovacik, M A1 - Ierapetritou, M G A1 - Androulakis, I T1 - Temporal expression profiling to assess dynamics of exposure to DBP. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Euling, S A1 - Makris, S A1 - Sen, B A1 - White, L A1 - Benson, B A1 - Gaido, K W A1 - Kim, A S A1 - Hester, S A1 - Wilson, V A1 - Keshava, C A1 - Keshava, N A1 - Foster, P M A1 - Androulakis, I P A1 - Ovacik, M A1 - Ierapetritou, M G A1 - Gray, J A1 - Thompson, C A1 - Chiu, W A1 - Welsh, W J A1 - Georgopoulos, P G T1 - Use of toxicogenomics data in risk assessment: a case study on dibutyl phthalate and male reproductive developmental effects. Y1 - 2007/05/21-23 N1 - R832721 ER - TY - CONF A1 - Euling, S A1 - Makris, S A1 - Sen, B A1 - White, L T1 - An approach to using genomics data in risk assessment. Y1 - 2008/06/28-2 N1 - R832721 ER - TY - CONF A1 - Feng, X J A1 - Rabitz, H T1 - Development of computational tools for optimal identification of biological networks. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Feng, X J T1 - Optimal identification of complex biological networks. Y1 - 2008/04/13-18 N1 - R832721 ER - TY - CONF A1 - Feng, X J A1 - Rabinowitz, J D T1 - System identification tools for metabolic engineering. Y1 - 2008/02/11 N1 - R832721 ER - TY - CONF A1 - Feng, X A1 - Li, G A1 - Rabitz, H T1 - A closed-loop identification protocol (CLIP) for nonlinear biological networks. Y1 - 2006/10/11 N1 - R832721 N1 - R832721C003 ER - TY - CONF A1 - Floudas, C A T1 - Dynamics of macromolecules: optimization methods and tools for in silico proteomics. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Floudas, C A A1 - DiMaggio, P A A1 - McAllister, S R A1 - Feng, X J T1 - Optimal methods for re-ordering data matrices in systems biology and drug discovery applications. Y1 - 2007/11/24-29 N1 - R832721 ER - TY - CONF A1 - Floudas, C A A1 - Fung, H K A1 - Morikis, D T1 - De novo protein design with flexible backbone templates and its application to the redesign of complement C3a. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Floudas, C A A1 - Floudas, R A1 - McAllister, S R T1 - A new optimization based approach for protein residue contact prediction. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Floudas, C A A1 - McAllister, S R A1 - DiMaggio, P A A1 - Feng, X J T1 - A novel approach for accelerating molecular discovery of sparsely sampled libraries. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Floudas, C A T1 - Biclustering via optimal ordering. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Floudas, C A A1 - Tan, M P A1 - Broach, J R T1 - Inferring large scale gene regulatory structures using optimization based approaches. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Floudas, C A A1 - DiMaggio, P A T1 - Peptide identification via integer linear optimization, local alignment database search and tandem mass spectrometry. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Floudas, C A T1 - De novo protein design in computational genomics. Y1 - 2007/10/ N1 - R832721 ER - TY - CONF A1 - Floudas, C A T1 - De novo protein design in computational genomics: advances and challenges. Y1 - 2007/10/ N1 - R832721 ER - TY - CONF A1 - Floudas, C A T1 - De novo protein design. Y1 - 2008/04/ N1 - R832721 ER - TY - CONF A1 - Floudas, C A T1 - De novo protein design: advances and challenges. Y1 - 2008/04/ N1 - R832721 ER - TY - CONF A1 - Floudas, C A T1 - Discovery in proteomics: de novo and hybrid methods via tandem mass spectrometry. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Floudas, C A T1 - Structure prediction in protein folding, de novo protein design and proteomics. Y1 - 2008/08/12-21 N1 - R832721 ER - TY - CONF A1 - Floudas, C A T1 - Prediction of interhelical contacts and tertiary structure in alpha helical globular proteins. Y1 - 2008/01/14-18 N1 - R832721 ER - TY - CONF A1 - Floudas, C A T1 - De novo protein design in computational genomics: advances and challenges. Y1 - 2008/06/2-4 N1 - R832721 ER - TY - CONF A1 - Floudas, C A T1 - Recent advances in deterministic global optimization. Y1 - 2008/06/21-28 N1 - R832721 ER - TY - CONF A1 - Floudas, C A T1 - Deterministic global optimization. Y1 - 2008/11/9-12 N1 - R832721 ER - TY - CONF A1 - Foteinou, P T A1 - Yang, E A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - Transcriptional analysis of the genome-wide response of leukocytes in an in vivo human model of systemic inflammation. Y1 - 2007/01/14-18 N1 - R832721 ER - TY - CONF A1 - Foteinou, P T A1 - Ierapetritou, M G A1 - Androulakis, I P T1 - A mixed-integer optimization model for the design of gene regulatory networks. Y1 - 2007/06/12-17 N1 - R832721 ER - TY - CONF A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - In silico simulation of corticosteroids effect on a nuclear factor-kB dependent indirect response model of systemic inflammation in peripheral human blood leukocytes. Y1 - 2008/05/12-14 N1 - R832721 ER - TY - CONF A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - Approaches toward a reverse engineering model of system inflammation in humans. Y1 - 2008/09/25-26 N1 - R832721 ER - TY - CONF A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - A multi-scale model for the assessment of autonomic dysfunction in human endotoxemia. Y1 - 2009/11/8-13 N1 - R832721 ER - TY - CONF A1 - Foteinou, P T A1 - Calvano, S E A1 - Lowry, S F A1 - Androulakis, I P T1 - A multi-scale model for the assessment of autonomic dysfunction in human endotoxemia. Y1 - 2009/10/7-10 N1 - R832721 ER - TY - CONF A1 - Fung, H K A1 - Floudas, C A T1 - A novel computational framework for de novo protein design. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Fung, H K A1 - McAllister, S R A1 - Rajgaria, R A1 - Floudas, C A T1 - Protein structure prediction and de novo protein design. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Fung, H K A1 - Floudas, C A A1 - Ault, A D A1 - Broach, J R T1 - A novel computational framework for the optimal design of a protein biosensor that recognizes a known set of ligands. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Fung, H K A1 - Welsh, W J A1 - Floudas, C A T1 - Full-sequence design of human beta defensin-2. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G A1 - Isukapalli, S A1 - Wang, S W A1 - Sasso, A T1 - An overview of MENTOR and DORIAN. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G T1 - An integrative framework for systems toxicology. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G A1 - Welsh, W J A1 - Isukapalli, S A1 - Ierapetritou, M A1 - Androulakis, I A1 - Roth, C M A1 - Tong, W T1 - Infrastructure for a virtual liver I: essential concepts and modules systems toxicology. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G A1 - Isukapalli, S A1 - Wang, S W T1 - Overview of an integrated modeling system for supporting multiscale source-to-effect studies of human health risks. Y1 - 2007/01/30 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G A1 - Lioy, P J A1 - Welsh, W J A1 - Isukapalli, S A1 - Wang, S W T1 - Integrating enviroinformatic and bioinformatic approaches for the systematic analysis of environmentally related human health risks. Y1 - 2007/05/15-17 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G A1 - Isukapalli, S A1 - Wang, S W A1 - Sasso, A A1 - Chen, M A1 - Tong, W T1 - Environmental systems biology framework for human health risk analysis. Y1 - 2007/05/21-23 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G A1 - Wang, S W A1 - Sasso, A F A1 - Isukapalli, S S T1 - Characterizing exposures to arsenic and co-occurring contaminants using the Modeling Environment for TOtal Risk studies (MENTOR). Y1 - 2007/10/14-18 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G A1 - Isukapalli, S S A1 - Tong, W A1 - Lioy, P J T1 - Exposure biology for a systems approach in studying environmental health risks. Y1 - 2007/10/14-18 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G T1 - A multiscale framework for environmental systems toxicology. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G A1 - Welsh, W J A1 - Isukapalli, S S A1 - Ierapetritou, M T1 - Progress in developing infrastructure for a virtual liver I: essential concepts and modules. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G T1 - Mechanistic studies of environmental causes of human disease: a bionetwork dynamics modeling approach. Y1 - 2008/06/29-3 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G A1 - Isukapalli, S S T1 - Integrative source-to-dose-to-effect modeling for interpreting biomonitoring data in an exposure context. Y1 - 2009/11/1-5 N1 - R832721 ER - TY - CONF A1 - Georgopoulos, P G T1 - A multiscale integrated model-based approach for the analysis of exposure risks. Y1 - 2010/04/20 N1 - R832721 ER - TY - CONF A1 - Gerecke, D R A1 - Chen, M A1 - Isukapalli, S A1 - Tong, W A1 - Ovacik, M A A1 - Foteinou, P T A1 - Androulakis, I P A1 - Welsh, W A1 - Georgopoulos, P G T1 - Differential gene expression profiling of mouse skin after sulfur mustard exposure: extended time response and inhibitor effect. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Gerecke, D R A1 - Chen, M A1 - Isukapalli, S A1 - Chang, Y C T1 - Gene expression studies of mouse skin response to sulfur mustard exposure for evaluating efficacy of inhibitors. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Guzikowski, S A A1 - Roth, C M A1 - Ierapetritou, M G A1 - Isukapalli, S A1 - Georgopoulos, P G T1 - Infrastructure for a virtual liver III: methods for metabolic analysis of xenobiotic interactions. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Guzikowski, S A A1 - Ierapetritou, M G A1 - Roth, C M T1 - Metabolic analysis of xenobiotic interactions in hepatocytes. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Guzikowski, S A1 - Ierapetritou, M G A1 - Roth, C M T1 - Modeling metabolic relationships in acetaminophen-induced hepatotoxicity. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Isukapalli, S S A1 - Sasso, A F A1 - Okino, M A1 - Georgopoulos, P G T1 - Evaluation of methods for reconstructing exposures from biomarkers via PBTK models. Y1 - 2007/10/14-18 N1 - R832721 ER - TY - CONF A1 - Isukapalli, S S A1 - Price, K A1 - Georgopoulos, P G A1 - Krishnan, K T1 - A physiologically-based algorithm for predicting internal dose of inhaled toluene: applications for high dose to low dose and rodent to human extrapolations. Y1 - 2008/04/14-17 N1 - R832721 ER - TY - CONF A1 - Isukapalli, S S A1 - Sasso, A F A1 - Georgopoulos, P G A1 - Krishnan, K T1 - Efficient physiologically-based algorithms for estimating internal doses occurring due to chronic exposures of organics. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Isukapalli, S S A1 - Brinkerhoff, C J A1 - Sasso, A F A1 - Georgopoulos, P G T1 - Progress in developing infrastructure for a virtual liver V: PBTK/TD models with zonal and distributed parameters for metabolism of environmental toxins. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Isukapalli, S S T1 - Multiscale mechanistic models in exposure assessment:case studies with virtual organs. Y1 - 2009/11/1-5 N1 - R832721 ER - TY - CONF A1 - Isukapalli, S A1 - Sasso, A A1 - Wang, S W A1 - Ierapetritou, M G A1 - Georgopoulos, P G T1 - Optimized Bayesian inversion of biological data using mechanistic models. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Iyer, V V A1 - Roth, C M A1 - Ierapetritou, M G T1 - Progress in developing infrastructure for a virtual liver IV: effects of glucose and insulin levels on HepG2 cell metabolism. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Iyer, V V A1 - Ierapetritou, M G A1 - Roth, C M T1 - Understanding mechanisms of conazole toxicity in cultured hepatocytes. Y1 - 2009/11/8-13 N1 - R832721 ER - TY - CONF A1 - Iyer, V V A1 - Androulakis, I P A1 - Roth, C M A1 - Ierapetritou, M G T1 - Effects of triadimefon on the metabolism of cultured hepatocytes. Y1 - 2010/05/31-3 N1 - R832721 ER - TY - CONF A1 - Jornsten, R T1 - Flexible mixture modeling, with applications to gene clustering and the selection of differentially expressed genes. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Jornsten, R T1 - Simultaneous model selection via rate-distortion theory, with applications to the analysis of gene expression data. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Kholodovych, V A1 - Tabb, M M A1 - Blumberg, B A1 - Welsh, W J T1 - Regulation of the clearance mechanism of environmental pollutants and xenobiotic chemicals by the Pregnane X Receptor (PXR): structural requirements and species to species extrapolation. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Kholodovych, V A1 - Tabb, M M A1 - Blumberg, B A1 - Welsh, W J T1 - Structural characteristics of the pregnane X receptor in regulation of the clearance mechanism of environmental pollutants and xenobiotic chemicals. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Kholodovych, V A1 - Ai, N A1 - Welsh, W J A1 - Chang, C T1 - Human pregnane X receptor antagonists and agonists define molecular requirements for different binding sites. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Kholodovych, V A1 - Chekmarev, D A1 - Welsh, W J T1 - Biological spectra profile analysis in computational toxicology: linking the bioactivities and molecular structures of chemical datasets. Y1 - 2009/11/1-5 N1 - R832721 ER - TY - CONF A1 - Kortagere, S A1 - Welsh, W J T1 - Structural analysis of toxicophore interactions with biomolecules. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Kortagere, S A1 - Welsh, W J T1 - Structural analysis of toxicophore interactions with biomolecules. Y1 - 2007/05/21-23 N1 - R832721 ER - TY - CONF A1 - Kortagere, S A1 - Chekmarev, D A1 - Welsh, W J A1 - Ekins, S T1 - New predictive models for blood-brain barrier permeability of drug-like molecule. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Li, G A1 - Feng, X T1 - Dynamics of bionetworks: tools for network identification and high-dimensional data analysis. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Lioy, P J A1 - Weisel, C A1 - Georgopoulos, P G T1 - Activities on environmental exposure and sampling issues. Y1 - 2010/04/19 N1 - R832721 ER - TY - CONF A1 - McAllister, S R A1 - Mickus, B E A1 - Klepeis, J L A1 - Floudas, C A T1 - A novel approach for α-helical topology prediction in globular proteins. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Miller, M A1 - Feng, X J A1 - Li, G A1 - Rabitz, H A T1 - Nonlinear bionetwork structure inference. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Orman, M A A1 - Berthiaume, F A1 - Androulakis, I P A1 - Ierapetritou, M G T1 - Optimization based pathway analysis to elucidate the effects of burn injury on the hepatic metabolism. Y1 - 2009/11/8-13 N1 - R832721 ER - TY - CONF A1 - Ovacik, M A A1 - Ierapetritou, M G A1 - Nesnow, I A1 - Hester, S A1 - Welsh, W A1 - Georgopoulos, P G T1 - Classification of triazole conazole fungicides: pathway analysis. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Ovacik, M A A1 - Androulakis, I P A1 - Ierapetritou, M G A1 - Euling, S A1 - Sen, B A1 - Gaido, K W A1 - Welsh, W J A1 - Georgopoulos, P G T1 - Transcriptional analysis following in utero exposure to dibutyl phthalate (DBP) esters. Y1 - 2007/05/26-27 N1 - R832721 ER - TY - CONF A1 - Ovacik, M A A1 - Ierapetritou, M G A1 - Sen, B A1 - Euling, S A1 - Georgopoulos, P G A1 - Welsh, W A1 - Gaido, K W A1 - Androulakis, I P T1 - Toxicogenomics analysis following in utero exposure to di-butyl-phthalate. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Ovacik, M A A1 - Ierapetritou, M G A1 - Georgopoulos, P G A1 - Welsh, W T1 - Pathway activity analysis for transcriptional profiling of in utero exposure to d-n-butyl phthalate. Y1 - 2007/10/25-26 N1 - R832721 ER - TY - CONF A1 - Ovacik, M A A1 - Ierapetritou, M G A1 - Georgopoulos, P G A1 - Welsh, W J T1 - The indirect response model of arsenic exposure on gene expression. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Ovacik, M A1 - Ierapetritou, M G A1 - Androulakis, I P A1 - Sen, B A1 - Euling, S A1 - Gaido, K A1 - Georgopoulos, P G A1 - Welsh, W T1 - Incorporating toxicogenomic data and approaches in risk assessment: case study-phthalate esters. Y1 - 2007/04/11 N1 - R832721 ER - TY - CONF A1 - Ovacik, M A1 - Ierapetritou, M G A1 - Androulakis, I P A1 - Sen, B A1 - Euling, S A1 - Gaido, K A1 - Welsh, W A1 - Georgopoulos, P G T1 - Gene expression profiling following exposure to phthalate esters: an integrative toxicogenomics approach. Y1 - 2007/05/21-23 N1 - R832721 ER - TY - CONF A1 - Ovacik, M A1 - Ierapetritou, M G A1 - Georgopoulos, P A1 - Welsh, W A1 - Euling, S A1 - Sen, B A1 - Gaido, K A1 - Androulakis, I P T1 - Pathway modeling of microarray data of the rat testes after in utero DBP exposure. Y1 - 2009/11/1-5 N1 - R832721 ER - TY - CONF A1 - Ovacik, M A1 - Androulakis, I P T1 - Species comparison analysis based on pathways. Y1 - 2009/11/8-13 N1 - R832721 ER - TY - CONF A1 - Rabitz, H A1 - Feng, X A1 - Miller, M A1 - Li, G T1 - Reverse engineering of quantitative bionetwork architecture. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Rabitz, H A1 - Feng, X J T1 - Optimal identification and analysis of bionetworks and biomolecules. Y1 - 2007/12/20 N1 - R832721 ER - TY - CONF A1 - Rajgaria, R A1 - McAllister, S R A1 - Floudas, C A T1 - High resolution Cα—Cα and side chain centroid based distance dependent force fields. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Rajgaria, R A1 - Floudas, C A T1 - Optimization models in novel force field generation. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Roth, C T1 - Computational modeling of liver function. Y1 - 2008/04/30–1 N1 - SU835083 N1 - R832721 ER - TY - CONF A1 - Sasso, A F A1 - Isukapalli, S S A1 - Georgopoulos, P G T1 - Physiologically based toxicokinetic modeling for mixtures of toxic metals. Y1 - 2007/10/14-18 N1 - R832721 ER - TY - CONF A1 - Sasso, A F A1 - Isukapalli, S S A1 - Kenyon, E A1 - Georgopoulos, P G T1 - Sensitivity analysis for studying impacts of aging on population toxicokinetics and toxicodynamics. Y1 - 2007/10/14-18 N1 - R832721 ER - TY - CONF A1 - Sasso, A F A1 - Isukapalli, S S A1 - Georgopoulos, P G T1 - Consistent physiologically based toxicokinetic modeling for mixtures of toxic metals and metalloids. Y1 - 2007/10/26 N1 - R832721 ER - TY - CONF A1 - Sasso, A F A1 - Georgopoulos, P G T1 - User oriented implementation of a generalized physiologically-based toxicokinetic (PBTK) modeling framework for mixtures. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Sasso, A F A1 - Krishnan, K A1 - Isukapalli, S S T1 - Integrated computational models for supporting risk assessment: case studies with chemical mixtures. Y1 - 2009/11/1-5 N1 - R832721 ER - TY - CONF A1 - Sasso, A A1 - Georgopoulos, P G T1 - Physiologically-based toxicokinetic models for toxic metal mixtures: development and demonstration of a mechanistically consistent framework. Y1 - 2006/12/3-6 N1 - R832721 ER - TY - CONF A1 - Sasso, A A1 - Shade, P A1 - Isukapalli, S S A1 - Georgopoulos, P G T1 - Age and gender considerations in physiologically based population toxicokinetics. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Sasso, A A1 - Isukapalli, S S A1 - Georgopoulos, P G T1 - Physiologically-based population toxicokinetic models for mixtures of metals. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Sasso, A A1 - Isukapalli, S A1 - Georgopoulos, P G T1 - Biologically based Bayesian reconstruction of human exposures from biomarker data: application to chlorpyrifos. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Sasso, A A1 - Isukapalli, S A1 - Georgopoulos, P G T1 - Mechanistically consistent PBTK modeling framework for mixtures: application to toxic metals. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Sasso, A A1 - Isukapalli, S S A1 - Georgopoulos, P G T1 - Assessing exposure and dose of VOCs using physiologically-based toxicokinetic models. Y1 - 2007/06/20 N1 - R832721 ER - TY - CONF A1 - Sasso, A A1 - Isukapalli, S A1 - Georgopoulos, P G T1 - Mechanistically consistent PBTK modeling framework for mixtures of toxic metals. Y1 - 2007/05/21-23 N1 - R832721 ER - TY - CONF A1 - Sasso, A A1 - Isukapalli, S S A1 - Georgopoulos, P G T1 - A systematic toxicokinetic modeling framework for mixtures of toxic metals. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Shade, P A1 - Georgopoulos, P G T1 - Physiologically based inhalation dosimetry modeling for nanoparticles: considerations of activity, age and gender. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Subramani, A A1 - Floudas, C A T1 - Single sequence alpha-helix and beta-strand prediction for globular proteins. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Swiss, V A1 - Nguyen, T A1 - Androulakis, I P A1 - Casaccia-Bonnefil, P T1 - The E2 family of transcription factors mediate the transcriptional regulation necessary for oligodendrocyte differentiation. Y1 - 2008/09/17-21 N1 - R832721 ER - TY - CONF A1 - Tan, M P A1 - Broach, J R A1 - Floudas, C A T1 - A novel optimization-based iterative clustering approach to uncover biologically coherent structures. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Tong, W T1 - Toxicogenomics: technology, application and challenges. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Wang, S W A1 - Yan, Y A1 - Georgopoulos, P G T1 - Comparative evaluation of three statistical data mining techniques (CART, MARS, and Random Forest) and their applications in analyzing the NHANES VOC project data. Y1 - 2007/10/14-18 N1 - R832721 ER - TY - CONF A1 - Wang, S W A1 - Sasso, A A1 - Yang, Y C A1 - Georgopoulos, P G T1 - Modeling dietary human exposures to mercury and methylmercury using a probabilistic source-to-dose approach. Y1 - 2008/04/15 N1 - R832721 ER - TY - CONF A1 - Welsh, W J T1 - Dynamics of small molecules: Cheminformatics tools for predictive toxicology. Y1 - 2007/04/26-27 N1 - R832721 ER - TY - CONF A1 - Welsh, W J A1 - Kholodovych, V A1 - Chekmarev, D A1 - Georgopoulos, P G T1 - Shape signatures: a powerful new technology for risk assessment. Y1 - 2007/05/21-23 N1 - R832721 ER - TY - CONF A1 - Welsh, W J A1 - Georgopoulos, P G T1 - Multiscale modeling of environmental impacts on bionetworks. Y1 - 2007/10/14-18 N1 - R832721 ER - TY - CONF A1 - Welsh, W J T1 - Computational toxicology from a cheminformatics perspective. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Welsh, W J A1 - Georgopoulos, P G T1 - Environmental Bioinformatics and Computational Toxicology Center (ebCTC): research in multiscale modeling of the effects of environmental toxicants. Y1 - 2009/10/1 N1 - R832721 ER - TY - CONF A1 - Welsh, W T1 - Cheminformatics tools for toxicant identification and characterization. Y1 - 2006/12/13 N1 - R832721 ER - TY - CONF A1 - Welsh, W A1 - Ekins, S T1 - Molecular modeling studies of interactions between xenobiotics and liver nuclear receptors. Y1 - 2007/12/20 N1 - R832721 ER - TY - CONF A1 - Yang, E A1 - Androulakis, I P T1 - A non-independent model for transcription factor binding prediction. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Yang, E A1 - Foteinou, P T A1 - King, K R A1 - Yarmush, M L T1 - Extraction of transcriptional signaling networks via globally optimal biclustering. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Yang, E A1 - Androulakis, I P T1 - A non-independent model for transcription factor binding. Y1 - 2007/09/ N1 - R832721 ER - TY - CONF A1 - Yang, E A1 - Foteinou, P T A1 - King, K R A1 - Yarmush, M L A1 - Androulakis, I P T1 - Extraction of transcriptional signaling networks via globally optimal biclustering. Y1 - 2007/09/ N1 - R832721 ER - TY - CONF A1 - Yang, H A1 - Roth, C M A1 - Ierapetritou, M G T1 - Reaction and pathway analysis of hepatic metabolism. Y1 - 2006/11/17 N1 - R832721 ER - TY - CONF A1 - Yang, H A1 - Roth, C M A1 - Ierapetritou, M T1 - Effects of amino acid supplementation in optimal liver specific functions of hepatocytes. Y1 - 2007/11/4-9 N1 - R832721 ER - TY - CONF A1 - Yang, H A1 - Roth, C M A1 - Ierapetritou, M G T1 - Progress in developing infrastructure for a virtual liver III: effects of amino acid supplementation in hepatic metabolism. Y1 - 2008/04/30-1 N1 - R832721 ER - TY - CONF A1 - Yang, H A1 - Roth, C M A1 - Ierapetritou, M G T1 - Analysis of amino acids supplementation in hepatocyte culture using optimization modeling. Y1 - 2009/11/8-13 N1 - R832721 ER - TY - CONF A1 - Yang, H A1 - Roth, C M A1 - Ierapetritou, M G T1 - Design and analysis of amino acid supplementation in hepatocyte culture using optimization modeling. Y1 - 2009/10/31 N1 - R832721 ER - TY - CONF A1 - Yang, Y C A1 - Xu, X A1 - Georgopoulos, P G T1 - Improving assessments of residential human exposures to chloroform via Bayesian PBTK modeling. Y1 - 2007/06/20 N1 - R832721 ER - TY - CONF A1 - Fung, H A1 - Floudas, C A1 - Taylor, M A1 - Siliciano, R T1 - A New De Novo Approach for Optimizing Peptides that Inhibit HIV-1 Entry Y1 - 2017/01/10 N1 - R832721 JF - 17TH EUROPEAN SYMPOSIUM ON COMPUTER AIDED PROCESS ENGINEERING SP - 1 EP - 6 ER - TY - CONF A1 - Georgopoulos, P G T1 - A holistic multiscale approach for assessing the interactions of environmental and biological systems. Y1 - 2006/07/3-7 N1 - R832721 N1 - R832721C001 ER - TY - CONF A1 - McAlister, S A1 - Floudas, C T1 - Alpha-helical topology and tertiary structure prediction in globular proteins Y1 - 2007/12/12 N1 - R832721 JF - PROCEEDINGS OF THE 46TH IEEE CONFERENCE ON DECISION AND CONTROL, VOLS 1-14 VL - 9885857 SP - 4599+ ER - TY - CONF A1 - Miller, M A1 - Feng, X A1 - Li, G A1 - Rabitz, H T1 - Nonlinear bionetwork structure inference using the random sampling-high dimensional model representation (RS-HDMR) algorithm. Y1 - 2009// N1 - R832721 SP - 6412 EP - 6415 ER - TY - CONF A1 - Yang, E A1 - Berthiaume, F A1 - Yarmush, M L A1 - Androulakis, I P T1 - An integrative systems biology approach for analyzing liver hypermetabolism. Y1 - 2006/07/9-13 N1 - R832721C002 N1 - R832721 SP - 1655 EP - 1660 ER - TY - CONF A1 - Yang, H A1 - Yarmush, M L A1 - Roth, C A1 - Ierapetritou, M G T1 - Minimal reaction sets and metabolic pathways for cultured hepatocytes. Y1 - 2006/07/9-13 N1 - R832721C002 N1 - R832721 SP - 1711 EP - 1716 ER -