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  - 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  - 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  - 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  - 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  - 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  - 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  - 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  - 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  - 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  - 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  - 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  - 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  - 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  - 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  - 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  - 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  - 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  - 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  -