PublicationsStructural BiologyJournal PapersA minimal ligand binding pocket within a network of correlated mutations identified by multiple sequence and structural analysis of G protein coupled receptors S. Moitra, K.C. Tirupula, J. Klein-Seetharaman, C.J. Langmead BMC Biophysics pp. (in press), 2012 PDF, Bibtex
Learning Generative Models of Molecular Dynamics N. S. Razavian, H. Kamisetty, C.J. Langmead BMC Genomics 13 pp. Suppl 1, S5. 2012 PDF, Bibtex
On-the-fly Identification of Conformational Sub-states from Molecular Dynamics Simulations A. Ramanathan, J.O. Yoo, C.J. Langmead Journal of Chemical Theory and Computation, 2011 7(3) pp. 778-789
Learning Generative Models for Protein Fold Families S. Balakrishnan, H. Kamisetty, J.C. Carbonell, S.I. Lee, C.J. Langmead Proteins: Structure, Function, and Bioinformatics, 2011 79(6) pp. 1061–1078
Accounting for Conformational Entropy in Predicting Binding Free Energies of Protein-protein Interactions H. Kamisetty, A. Ramanathan, C. Bailey-Kellogg, C. J. Langmead Proteins: Structure, Function, and Bioinformatics, 79(2) pp. 444-462, 2011
Discovering Conformational Sub-States Relevant to Protein Function A. Ramanathan, et al PLoS One, 6(1) pp. e15827
An Online Approach for Mining Collective Behaviors from Molecular Dynamics Simulations A. Ramanathan, P. K. Agarwal, M. Kurnikova, C. J. Langmead Journal of Computational Biology, 17(3), pp. 309-324, 2010 (invited submission)
Free Energy Estimates of All-atom Protein Structures Using Generalized Belief Propagation H. Kamisetty, E.P. Xing, C.J. Langmead Journal of Computational Biology 15(7), pp. 755-766, 2008 (invited submission)
A Probability-Based Similarity Measure for Saupe Alignment Tensors with Applications to Residual Dipolar Couplings in NMR Structural Biology A.K. Yan C.J. Langmead, B.R. Donald The International Journal of Robotics Research Special Issue on Robotics Techniques Applied to Computational Biology 24 (2-3), pp.165-182, 2005
An Expectation/Maximization Nuclear Vector Replacement Algorithm for Automated NMR Resonance Assignments C.J. Langmead, B.R. Donald Journal of Biomolecular NMR, 29, pp. 111-138, 2004
A Polynomial Time Nuclear Vector Replacement Algorithm for Automated NMR Resonance Assignments C.J. Langmead, A.K. Yan, L. Wang, R. Lilien, B.R. Donald Journal of Computational Biology, 11(2-3), pp. 277-298, 2004 (invited submission) Conference PapersLearning Generative Models of Molecular Dynamics N. S. Razavian, H. Kamisetty, C.J. Langmead Proceedings of 10th Asia Pacific Bioinformatics Conference, (APBC) pp. (in press), 2012 Melbourne, Australia. January 17-19, 2012 PDF, Bibtex
Synthesis of Insulin Pump Controllers from Safety Specifications using Bayesian Model Validation S. K. Jha, R.G. Datta C.J. Langmead, S. Jha, E. Sassano Proceedings of 10th Asia Pacific Bioinformatics Conference, (APBC) pp. (in press), 2012 Melbourne, Australia. January 17-19, 2012 PDF, Bibtex
Structure and Parameter Learning for von Mises Graphical Models N. S. Razavian, H. Kamisetty, C.J. Langmead Proceedings of NIPS workshop on Machine Learning in Computatioanl Biology, (MLCB) pp. (in press), 2011 also accepted for oral presentation PDF, Bibtex
Approximating Correlated Equilibria using Relaxations on the Marginal Polytope H. Kamisetty, X.P. Xing, C.J. Langmead Proceedings of 28th International Conference on Machine Learning, (ICML) pp. 1153-1160, 2011 Bellevue, WA. June 28-July 2, 2011
Time-Varying Gaussian Graphical Models of Molecular Dynamics Data N.S. Razavian, S. Moitra, H. Kamisetty, A. Ramanathan, C.J. Langmead Proceedings of 3DSIG 2010 Structural Bioinformatics and Computational Biophysics Boston, MA. July 9-10, 2010 PDF, Bibtex
Learning Networks of Statistical Couplings in Protein Fold Families using L1-regularization S. Balakrishnan, H. Kamisetty, J.C. Carbonell, S.I. Lee, C.J. Langmead Proceedings of 3DSIG 2010 Structural Bioinformatics and Computational Biophysics Boston, MA. July 9-10, 2010 PDF, Bibtex
A Graphical Model Approach for Predicting Free Energies of Association for Protein-Protein Interactions Under Backbone and Side-Chain Flexibility H. Kamisetty, C. Bailey-Kellogg, C. J. Langmead Proceedings of 3DSIG 2009 Structural Bioinformatics and Computational Biophysics pp. 67-68, 2009 Also accepted for oral presentation * Winner Best Contribution PDF, Bibtex
A Bayesian Approach to Protein Model Quality Assessment H. Kamisetty and C.J. Langmead Proceedings of 26th International Conference on Machine Learning, (ICML) pp. 481-488, 2009
Modeling and Inference of Sequence-Structure Specificity H. Kamisetty, B. Ghosh, C. Bailey-Kellogg, C. J. Langmead Proceedings of The 8th Annual International Conference on Computational Systems Bioinformatics (CSB) pp. 91-101, 2009
An Online Approach for Mining Collective Behaviors from Molecular Dynamics Simulations A. Ramanathan, P. K. Agarwal, M. Kurnikova, C. J. Langmead Proceedings of The 13th Annual International Conference on Computational Molecular Biology (RECOMB) pp. 138-154, 2009
Conformational Free Energy of Protein Structures: Computing Upper and Lower bounds H. Kamisetty, C.J. Langmead Proceedings of 3DSIG 2008 Structural Bioinformatics and Computational Biophysics pp. 23-24, 2008 Also accepted for oral presentation PDF, Bibtex
Using Bit Vector Decision Procedures for Analysis of Protein Folding Pathways C.J. Langmead, S. K. Jha Fourth Workshop on Constraints in Formal Verification In press, 2007
Predicting Protein Folding Kinetics via Model Checking C.J. Langmead, S.K. Jha, Lecture Notes in Bioinformatics The 7th Workshop on Algorithms in Bioinformatics (WABI) pages 252-264, 2007
Free Energy Estimates of All-atom Protein Structures Using Generalized Belief Propagation H. Kamisetty, E.P. Xing, C.J. Langmead Proceedings of The Eleventh Annual International Conference on Computational Molecular Biology (RECOMB) , pp 366-380, 2007
Structure based chemical shift prediction using Random Forests non-linear regression K. Arun and C.J. Langmead Proceedings of The Forth Asia-Pacific Bioinformatics Conference, (APBC) 2006. pp 317-326, 2006
High-Throughput 3D Structural Homology Detection via NMR Resonance Assignment C.J. Langmead, B.R. Donald Proceedings of The IEEE Computer Society Bioinformatics Conference (CSB), pp. 278-289, 2004
3D-Structural Homology Detection via Unassigned Residual Dipolar Couplings C.J. Langmead, B.R. Donald Proceedings of The IEEE Computer Society Bioinformatics Conference (CSB), pp. 209-217, 2003 PDF, Bibtex
A Polynomial Time Nuclear Vector Replacement Algorithm for Automated NMR Resonance Assignments C.J. Langmead, A.K. Yan, L. Wang, R. Lilien, B.R. Donald Proceedings of The Seventh Annual International Conference on Computational Molecular Biology (RECOMB), pp. 176-187, 2003
Extracting Structural Information Using Time-Frequency Analysis of Protein NMR Data C.J. Langmead, B.R. Donald Proceedings of The Fifth Annual International Conference on Computational Molecular Biology (RECOMB), pp. 164-175, 2001 Ph.D. DissertationMolecular Replacement for Nuclear Magnetic Resonance: Application to NMR Resonance Assignment and Protein Structure Determination C.J. Langmead Doctorial Thesis: Dartmouth College Dept. of Computer Science, December 2003 Tech ReportsThe von Mises Graphical Model: Expectation Propagation for Inference N.S. Razavian, H. Kamisetty, C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-11-130 Sept 2011
The von Mises Graphical Model: Regularized Structure and Parameter Learning N.S. Razavian, H. Kamisetty, C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-11-129 Sept 2011
The von Mises Graphical Model: Structure Learning N.S. Razavian, H. Kamisetty, C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-11-108 March 2011
Time-Varying Gaussian Graphical Models of Molecular Dynamics Data N.S. Razavian, S. Moitra, H. Kamisetty, A. Ramanathan, C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-10-119 May 2010
Learning Generative Models of Protein Fold Families S. Balakrishnan, H. Kamisetty, J.C. Carbonell, C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-10-113 March 2010
PyTensor: A Python based Tensor Library J. O. Yoo, A. Ramanathan, C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-10-102 December 2010
Structure Learning for Generative Models of Protein Fold Families S. Balakrishnan, H. Kamisetty, J.C. Carbonell, C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-09-177 December 2009
A graphical model approach for predicting free energies of association for protein-protein interactions under backbone and side-chain flexibility H. Kamisetty, C. Bailey-Kellogg, C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-08-162 December 2008
Using Tensor Analysis to Characterize Contact-Map Dynamics of Proteins A. Ramanathan, P.K. Agarwal, C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-08-109 January 2008
Detecting Protein-Protein Interaction Decoys using Fast Free Energy Calculations C.J. Langmead, H. Kamisetty Carnegie Mellon University School of Computer Science Technical Report CMU-CS-07-156 October 2007
Predicting Protein Folding Kinetics via Model Checking C.J. Langmead, S.K. Jha, Carnegie Mellon University School of Computer Science Technical Report CMU-CS-07-132 May 2007
Free Energy Estimates of All-atom Protein Structures Using Generalized Belief Propagation H. Kamisetty, E.P. Xing, C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-06-160 November 2006
Structure based chemical shift prediction using Random Forests non-linear regression K. Arun, C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-05-163 July 2005
Classifying Protein Structural Dynamics via Residual Dipolar Couplings Ruben Valas, C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-05-108 December 2004
An Improved Nuclear Vector Replacement Algorithm for Nuclear Magnetic Resonance Assignment C.J. Langmead, B.R. Donald Dartmouth Technical Report TR2004-494 March 2004
High-Throughput 3D Homology Detection via NMR Resonance Assignment C.J. Langmead, B.R. Donald Dartmouth Technical Report TR2004-487 February 2004
A Probability-Based Similarity Measure for Saupe Alignment Tensors with Applications to Residual Dipolar Couplings in NMR Structural Biology A.K. Yan C.J. Langmead, B.R. Donald Dartmouth Technical Report TR2003-474 October 2003 PDF, Bibtex
3D-Structural Homology Detection via Unassigned Residual Dipolar Couplings C.J. Langmead, B.R. Donald Dartmouth Technical Report TR2003-439 January 2003 Posters and AbstractsMechanistic Interpretation of the Binding Energy Landscape of Ubiquitin A. Ramanathan, X. Gao, C. J. Langmead From Computational Biophysics to Systems Biology (CBSB10) Traverse City, MI. June 6-8, 2010
Incorporating Configurational Entropy into Binding Free Energy Calculations via Statistical Inference H. Kamisetty, X. Gao, C. J. Langmead Keystone Symposium on Computer Aided Drug Design Whistler, BC. April 20-25, 2010 * Also invited for oral presentation
Protein Flexibility and Energy Flow During Enzyme Catalysis A. Ramanathan, J.M. Borroguero, C. J. Langmead, P.K. Agarwal Computers in Chemistry, 238th ACS National Meeting, 2009 * Also invited for oral presentation
Dynamic Invariants in Protein Folding Pathways Revealed by Tensor Analysis A. Ramanathan, C. J. Langmead 8th Annual International Conference on Computational Systems Bioinformatics (CSB), 2009
Belief Propagation Reveals Allosteric Mechanisms in Proteins H. Kamisetty, A. Ramanathan, C. J. Langmead 8th Annual International Conference on Computational Systems Bioinformatics (CSB), 2009
A Graphical Model Approach for Predicting Free Energies of Association for Protein-Protein Interactions Under Backbone and Side-Chain Flexibility H. Kamisetty, C. Bailey-Kellogg, C. J. Langmead Intelligent Systems in Molecular Biology (ISMB), 2009
Identifying Allosteric Mechanisms via Message Passing H. Kamisetty, A. Ramanathan, C. J. Langmead Keystone Symposium on Protein Dynamics, Allostery, and Function Keystone, CO. June 5-10, 2009
Protein Flexibility and Energy Flow During Enzyme Catalysis A. Ramanathan, J.M. Borroguero, C. J. Langmead, P.K. Agarwal Keystone Symposium on Protein Dynamics, Allostery, and Function Keystone, CO. June 5-10, 2009
Identifying Energy Coupled Networks of Residues Mediating Allosteric Coupling in Proteins A. Ramanathan, A. Savol, C. J. Langmead, P.K. Agarwal, C. S. Chennubhotla Keystone Symposium on Protein Dynamics, Allostery, and Function Keystone, CO. June 5-10, 2009
Identifying Allosteric Mechanisms via Belief Propagation H. Kamisetty, A. Ramanathan, C. J. Langmead 13th Annual International Conference on Computational Molecular Biology (RECOMB) Tucson, AZ. May 18-21, 2009
Incorporating Protein Flexibility in Predicting Free Energies of Association for Protein-Protein Interactions H. Kamisetty, C. Bailey-Kellogg, C. J. Langmead 13th Annual International Conference on Computational Molecular Biology (RECOMB) Tucson, AZ. May 18-21, 2009
Conserved Protein Flexibility And Pathways Of Energy Flow In Enzyme Catalysis A. Ramanathan, J. Borreguero, C. J. Langmead, P. K. Agarwal Biophysical Journal, 2009 96(3) p. 71a
Large-Scale Testing of Chemical Shift Prediction Algorithms and Improved Machine Learning-Based Approaches to Shift Prediction K. Arun and C.J. Langmead IEEE Computer Society Bioinformatics Conference (CSB) Stanford University, Palo Alto, CA, August 2004
High-Throughput 3D Homology Detection via NMR Resonance Assignment C.J. Langmead, B.R. Donald The Eighth Annual International Conference on Computational Molecular Biology (RECOMB) March, CA, March 2004
A Framework for Automated NMR Resonance Assignment and 3D Structural Homology Detection C.J. Langmead, B.R. Donald Gordon Research Conference on Computational Aspects of Biomolecular NMR Ventura, CA, January 2004
Chemical Shifts Dynamics (CSD): Time-Frequency Analysis of Protein NMR Data C.J. Langmead, B.R. Donald Intelligent Systems in Molecular Biology (ISMB) San Diego, CA, August 2000 Systems Biology and MedicineJournal PapersA Head-to-Head Comparison of Available Clinical Scores in Predicting Persistent Organ Failure in Acute Pancreatitis R. Mounzer*, C.J. Langmead*, A. Evans, F. Bishezari, V. Muddana, A. Slivka, D. C. Whitcomb, D. Yadav, G.I. Papachristou Gasteroenterology, 2012, pp. (in press) * Joint first authorship
Serum Biomarker Profiles as Screening Tools in Lung Cancer B.M. Nolen, C.J. Langmead, S, Choi, A. Lomakin, A. Marrangoni, W. L. Bigbee, J. L. Weissfeld, D. O. Wilson, S. Dacic, J. M. Siegfried, and A. E. Lokshin Cancer Biomarkers 10(1) pp. 3--12, 2012 PDF, Bibtex
Synthesis of Insulin Pump Controllers from Safety Specifications using Bayesian Model Validation S. K. Jha, R.G. Datta, C.J. Langmead, S, Jha, E. Sassano Int. J. Bioinformatics Research and Applications 2012, pp. (in press) PDF, Bibtex
Exploring Behaviors of SDE Models of Biological Systems using Change of Measures S. K. Jha, C.J. Langmead BMC Bioinformatics 2012, pp. (in press) PDF, Bibtex
Using Optical Markers of Normal-Appearing Rectal Epithelial Cells to Identify Patients With Ulcerative Colitis (UC) - Associated Neoplasia R. K. Bista, T. A. Brentnall, M. P. Bronner, C.J. Langmead, R. E. Brand, and Y. Liu Inflammatory Bowel Diseases, 17(12) pp. 2427--2435, 2011 PDF, Bibtex
Serum Biomarker Panels for the Detection of Pancreatic Cancer R. E. Brand, C.J. Langmead, B. M. Nolen, H. J. Zeh, P. J. Allen, M. A. Eloubeidi, M. Goldberg, E. Elton, J. P. Arnoletti, J. D. Christein, S. M. Vickers, D. P. Landsittel, D. C. Whitcomb, W. E. Grizzle, and A. E. Lokshin Clinical Cancer Research, 2011 17(4):805-816
Synthesis and Infeasibility Analysis for Stochastic Models of Biochemical Systems using Statistical Model Checking and Abstraction Refinement S. K. Jha, C. J. Langmead Journal of Theoretical Computer Science, 412(21), pp. 2162-2187, 2011 (invited submission)
Angiopoietin-2, a regulator of vascular permeability in inflammation, is associated with persistent organ failure in patients with acute pancreatitis from the US and Germany D. C. Whitcomb, V. Muddana, C. J. Langmead, F.D. Houghton, A. Guenther, P.K. Eagon, J. Mayerle, A. A. Aghdassi, F. Ulrich, A. Evans, J. Lamb, G. Clermont, M.M. Lerch, G. I. Papachristou American Journal of Gastroenterology, 105(10), pp. 2287–2292, 2010
Parameter Synthesis in Nonlinear Dynamical Systems: Application to Systems Biology A. Donze, G. Clermont, C. J. Langmead Journal of Computational Biology, 17(3), pp. 325-336, 2010 (invited submission)
Symbolic Approaches to Finding Control Strategies in Boolean Networks C.J. Langmead, S.K. Jha Journal of Bioinformatics and Computational Biology, 7(2) pp. 323 – 338, 2009 (invited submission) Supplemental Figure and Text Example 4x4 input file Example 32x32 input file
Phase-Independent Analysis of Genome-Wide Expression Patterns C.J. Langmead, A.K. Yan, C.R. McClung, B.R. Donald Journal of Computational Biology 10(3-4), pp. 521-536, 2003 (invited submission) PDF, Bibtex Conference PapersDecision Procedure Based Discovery of Rare Behaviors in SDE Models of Biological Systems: Applications to Minimal Cell Cycle Model A.K. Ghosh, S. K. Jha, C.J. Langmead, S. Jha, E. Sassano Proceedings of the 2nd International Conference on Bio and Medical Sciences (ICCABS), 2012, (in press) PDF, Bibtex
Discovering Rare Behaviors of Stochastic Models of Biological Systems using Decision Procedures based Design Tool A.K. Ghosh, S. K. Jha, F. Hussain, C.J. Langmead, S. Jha Proceedings of the 49th Annual Design Automation Conference (DAC), 2012, (in press) PDF, Bibtex
Exploring Behaviors of SDE Models of Biological Systems using Change of Measures * Winner Best Paper S. K. Jha, C.J. Langmead Proceedings of the 1st International Conference on Bio and Medical Sciences (ICCABS), Orlando FL, 2011, pp. 111-117
Analogies between Structural and Systems Biology and Systems Engineering in Dynamic Environments S. Moitra, N. Yanamala, O. Tastan, I. Singh, C.J. Langmead, J. Klein-Seetharaman Proceedings of The 5th International Conference on Systems of Systems Engineering (SoSE), Leicestershire, UK, June 22-24, 2010 (in press) (invited submission) PDF, Bibtex
Generalized Queries and Bayesian Statistical Model Checking in Dynamic Bayesian Networks: Application to Personalized Medicine C. J. Langmead Proceedings of The 8th Annual International Conference on Computational Systems Bioinformatics (CSB) pp. 201-212, August, 2009
A Bayesian Approach to Model Checking Biological Systems S. K. Jha, E.M. Clarke, C.J. Langmead, A. Legay, A. Platzer, A., P. Zuliani Proceedings of The Seventh Annual Conference on Computational Methods in Systems Biology, (CMSB). pp. 218-234, September 2009
Parameter Synthesis in Nonlinear Dynamical Systems: Application to Systems Biology A. Donze, G. Clermont, A. Legay, C. J. Langmead Proceedings of The 13th Annual International Conference on Computational Molecular Biology (RECOMB) pp. 155-169, 2009
Angiopoietin-2, a regulator of vascular permeability in inflammation, is elevated in severe acute pancreatitis and and is associated with systemic organ failure D.C. Whitcomb, V.N. Muddana, C. J. Langmead, J. Lamb, G. I. Papachristou Pancreas, Abstracts of Papers for the 39th Annual Meeting of the American Pancreatic Association 37(4), pp. 500-501, 2008
Statistical Model Checking in BioLab: Application to the automated analysis of the T-Cell Receptor Signalling Pathway E.M. Clarke, J.R. Faeder. L.A. Harris, C.J. Langmead, A. Legay, S. K. Jha Proceedings of The Sixth Annual Conference on Computational Methods in Systems Biology, (CMSB) 2008. pp. 231-250, 2008
Symbolic Approaches to Finding Control Strategies in Boolean Networks C.J. Langmead, S.K. Jha Proceedings of The Sixth Asia-Pacific Bioinformatics Conference, (APBC) pp. 307-319, 2008. An extended version of the conference paper PDF, Bibtex
A Randomized Algorithm for Learning Mahalanobis Metrics: Application to Classification and Regression of Biological Data C.J. Langmead Proceedings of The Forth Asia-Pacific Bioinformatics Conference, (APBC) pp. 217-226, 2006
A Maximum Entropy Algorithm for Rhythmic Analysis of Genome-Wide Expression Patterns C.J. Langmead, C.R. McClung, B.R. Donald Proceedings of IEEE Computer Society Bioinformatics Conference (CSB), pp. 237-245, 2002 PDF, Bibtex
Phase-Independent Analysis of Genome-Wide Expression Patterns C.J. Langmead, A.K. Yan, C.R. McClung, B.R. Donald Proceedings of The Sixth Annual International Conference on Computational Molecular Biology (RECOMB), pp. 205-215, 2002 Posters and AbstractsHematocrit, Creatinine, and Blood Urea Nitrogen in the assesment of Pancreatic Necrosis in Acute Pancreatitis: An International Study R. Mounzer, C.J. Langmead, A. Evans, F. Bishezari, J. Nasr, D. C. Whitcomb, G. I. Papachristou Gasteroenterology, 2011, Abstracts from Digestive Disease Week 2011 * Also invited for oral presentation
Admission clinical scores in predicting Persistent Organ Failure in Acute Pancreatitis: a head-to-head comparison and design of novel step-up classification rules R. Mounzer, C.J. Langmead, A. Evans, F. Bishezari, J. Nasr, D. Yadav, D. C. Whitcomb, G. I. Papachristou Gasteroenterology, 2011, Abstracts from Digestive Disease Week 2011 * Also invited for oral presentation
Prevalence of and factors determining prolonged length of stay in mild acute pancreatitis R. Mounzer, C.J. Langmead, D. Yadav, J. Nasr, M. Sanders, A. Geldrud, A. Slivka, D. C. Whitcomb, G. I. Papachristou Gasteroenterology, 2011, Abstracts from Digestive Disease Week 2011
Synthesis of Biochemical Models Using Signatures S. K. Jha, C.J. Langmead 1st International Conference on Bio and Medical Sciences (ICCABS), Orlando FL, 2011, page 248 PDF, Bibtex
Parameter Estimation and Synthesis for Systems Biology: New Algorithms for Nonlinear and Stochastic Models S.K. Jha, A. Donze, R. Paul, J. Dutta-Moscato, Q. Mi, G. Clermont, Y. Vodovotz, C.J. Langmead 9th International Conference on Complexity in Acute Illness (ICCAI), Atlanta, GA, Sept 10-12, 2010
Efficient Inference: Perturbagen Effect on Protein Subcellular Location Pattern A. Naik, J. Kangas, C.J. Langmead, R. F. Murphy 18th Conference on Intelligent Systems in Molecular Biology (ISMB), Boston, MA, July 11-13, 2010
Efficient Characterization of the Dependency of Protein Subcellular Location Pattern on Perturbagens A. Naik, J. Kangas, C.J. Langmead, R. F. Murphy NIBIB Trainee Meeting, 2010, Bethesda, MD, June 24-25, 2010
Using Optical Markers of Normal-appearing Rectal Epithelial Cells to Identify Patients with Ulcerative Colitis (UC)-associated Neoplasia T. Bretnall, R.K. Bista, M.P. Bronner, C. J. Langmead, R. Brand, Y. Liu Gasteroenterology, 2010, Abstracts from Digestive Disease Week 2010
Resistin, a potent adipokine, is associated with acute pancreatitis: Assessment of functional genetic polymorphisms and serum levels D.C. Whitcomb, V.N. Muddana, C. J. Langmead, G. I. Papachristou Gasteroenterology, 2010, Abstracts from Digestive Disease Week 2010 * Also invited for oral presentation
Angiopoietin-2, a regulator of vascular permeability in inflammation, is elevated in severe acute pancreatitis and and is associated with systemic organ failure D.C. Whitcomb, V.N. Muddana, C. J. Langmead, F.D. Houghton, A. Guenther, P.K. Eagon, J. Mayerle, J. Lamb, G. Clermont, M.M. Lerch, G. I. Papachristou 41st Annual Meeting of the European Pancreatic Club, 2009 * Also invited for oral presentation
Multiplex Serum Marker Panel Accurately Predicts Systemic Complications of Acute Pancreatitis D.C. Whitcomb, V.N. Muddana, C. J. Langmead, J. Lamb, G. I. Papachristou Gasteroenterology, 2009, Abstracts from Digestive Disease Week 2009
Microarray Analysis of Circadian Gene Expression in Rat-1 Fibroblasts G.E. Duffield, J.D. Best, B. Meurers, C.J. Langmead, A. Bittner, J.J. Loros, J.C., Dunlap Gordon Research Conference on Chronobiology, 2001 Technical ReportsStructural Operational Semantics (SOS) description of the BioNetGen language E.M. Clarke, S.K. Jha, C.J. Langmead, J. Faeder
Symbolic Approaches to Finding Control Strategies in Boolean Networks C.J. Langmead, S.K. Jha Carnegie Mellon University School of Computer Science Technical Report CMU-CS-07-155R October 2007
Temporal Logics as query languages for Dynamic Bayesian Networks: Application to D. Melanogaster Embryo Development C.J. Langmead, S.K. Jha, E. M. Clarke Carnegie Mellon University School of Computer Science Technical Report CMU-CS-06-159 September 2006
MiscellaneousConference PapersWhen to Stop Verification? Statistical Trade-off between Expected Loss and Simulation Cost S. K. Jha , C.J. Langmead, S. Ramesh, and S. Mohalik Proceedings of Design Automation and Test in Europe (DATE), pp. 1309-1314 Grenoble, France, March, 2011
Sound Analysis, Comparison and Modification Based on a Perceptual Model of Timbre Perception C.J. Langmead Proceedings of International Computer Music Conference Alberta, Canada, August 1995 Master's ThesisA Theoretical Model of Timbre Perception Based on Morphological Representations of Time-Varying Spectra C.J. Langmead Masters Thesis: Dartmouth College Dept. of Electro-Acoustic Music, June 1995 Tech ReportsBayesian Sequential Model Checking S.K Jha, E.M. Clarke, C.J. Langmead, A. Platzer, P. Zuliani Carnegie Mellon University School of Computer Science Technical Report CMU-CS-09-110 March 2009
Towards Inference and Learning in Dynamic Bayesian Networks using Generalized Evidence C.J. Langmead Carnegie Mellon University School of Computer Science Technical Report CMU-CS-08-151 August 2008 |
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