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Christopher J. Langmead, Ph.D. - Publications

Affiliations: 
2004 Dartmouth College, Hanover, NH, United States 
Area:
Computer Science, Molecular Biology
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27 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2017 Donovan-Maiye RM, Langmead CJ, Zuckerman DM. Systematic Testing of Belief-Propagation Estimates for Absolute Free Energies in Atomistic Peptides and Proteins. Journal of Chemical Theory and Computation. PMID 29185777 DOI: 10.1021/Acs.Jctc.7B00775  0.371
2016 Zhang H, Hou G, Lu M, Ahn J, Byeon IL, Langmead CJ, Perilla JR, Hung I, Gor'kov PL, Gan Z, Brey WW, Case DA, Schulten K, Gronenborn AM, Polenova T. HIV-1 Capsid Function is Regulated by Dynamics: Quantitative Atomic-Resolution Insights by Integrating Magic-Angle-Spinning NMR, QM/MM, and MD. Journal of the American Chemical Society. PMID 27701859 DOI: 10.1021/Jacs.6B08744  0.322
2015 Hussain F, Langmead CJ, Mi Q, Dutta-Moscato J, Vodovotz Y, Jha SK. Automated parameter estimation for biological models using Bayesian statistical model checking. Bmc Bioinformatics. 16: S8. PMID 26679759 DOI: 10.1186/1471-2105-16-S17-S8  0.329
2015 Kamisetty H, Ghosh B, Langmead CJ, Bailey-Kellogg C. Learning sequence determinants of protein:protein interaction specificity with sparse graphical models. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 22: 474-86. PMID 25973864 DOI: 10.1089/Cmb.2014.0289  0.32
2014 Ghosh AK, Hussain F, Jha S, Langmead CJ, Jha SK. Discovering rare behaviours in stochastic differential equations using decision procedures: applications to a minimal cell cycle model. International Journal of Bioinformatics Research and Applications. 10: 540-58. PMID 24989867 DOI: 10.1504/Ijbra.2014.062999  0.314
2014 Hussain F, Jha SK, Jha S, Langmead CJ. Parameter discovery in stochastic biological models using simulated annealing and statistical model checking. International Journal of Bioinformatics Research and Applications. 10: 519-39. PMID 24989866 DOI: 10.1504/Ijbra.2014.062998  0.332
2014 Langmead CJ. Generative models of conformational dynamics Advances in Experimental Medicine and Biology. 805: 87-105. PMID 24446358 DOI: 10.1007/978-3-319-02970-2_4  0.351
2012 Moitra S, Tirupula KC, Klein-Seetharaman J, Langmead CJ. A minimal ligand binding pocket within a network of correlated mutations identified by multiple sequence and structural analysis of G protein coupled receptors. Bmc Biophysics. 5: 13. PMID 22748306 DOI: 10.1186/2046-1682-5-13  0.332
2012 Jha SK, Langmead CJ. Exploring behaviors of stochastic differential equation models of biological systems using change of measures. Bmc Bioinformatics. 13: S8. PMID 22537012 DOI: 10.1186/1471-2105-13-S5-S8  0.315
2012 Razavian NS, Kamisetty H, Langmead CJ. Learning generative models of molecular dynamics. Bmc Genomics. 13: S5. PMID 22369071 DOI: 10.1186/1471-2164-13-S1-S5  0.383
2011 Ramanathan A, Yoo JO, Langmead CJ. On-the-Fly Identification of Conformational Substates from Molecular Dynamics Simulations. Journal of Chemical Theory and Computation. 7: 778-89. PMID 26596308 DOI: 10.1021/Ct100531J  0.316
2011 Balakrishnan S, Kamisetty H, Carbonell JG, Lee SI, Langmead CJ. Learning generative models for protein fold families. Proteins. 79: 1061-78. PMID 21268112 DOI: 10.1002/Prot.22934  0.357
2011 Kamisetty H, Ramanathan A, Bailey-Kellogg C, Langmead CJ. Accounting for conformational entropy in predicting binding free energies of protein-protein interactions. Proteins. 79: 444-62. PMID 21120864 DOI: 10.1002/Prot.22894  0.328
2011 Jha SK, Langmead CJ. Synthesis and infeasibility analysis for stochastic models of biochemical systems using statistical model checking and abstraction refinement Theoretical Computer Science. 412: 2162-2187. DOI: 10.1016/J.Tcs.2011.01.012  0.365
2011 Jha S, Donze A, Khandpur R, Dutta-Moscato J, Mi Q, Vodovotz Y, Clermont G, Langmead C. Parameter estimation and synthesis for systems biology: New algorithms for nonlinear and stochastic models Journal of Critical Care. 26: e8. DOI: 10.1016/J.Jcrc.2010.12.031  0.36
2010 Donzé A, Clermont G, Langmead CJ. Parameter synthesis in nonlinear dynamical systems: application to systems biology. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 17: 325-36. PMID 20377448 DOI: 10.1089/Cmb.2009.0172  0.309
2010 Ramanathan A, Agarwal PK, Kurnikova M, Langmead CJ. An online approach for mining collective behaviors from molecular dynamics simulations. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 17: 309-24. PMID 20377447 DOI: 10.1089/Cmb.2009.0167  0.324
2008 Kamisetty H, Xing EP, Langmead CJ. Free energy estimates of all-atom protein structures using generalized belief propagation. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 15: 755-66. PMID 18662103 DOI: 10.1089/Cmb.2007.0131  0.404
2006 Arun K, Langmead CJ. Structure based chemical shift prediction using Random Forests non-linear regression Series On Advances in Bioinformatics and Computational Biology. 3: 317-326.  0.341
2005 Yan AK, Langmead CJ, Donald BR. A probability-based similarity measure for saupe alignment tensors with applications to residual dipolar couplings in NMR structural biology International Journal of Robotics Research. 24: 165-182. DOI: 10.1177/0278364905050351  0.715
2004 Langmead CJ, Donald BR. High-throughput 3D structural homology detection via NMR resonance assignment. Proceedings / Ieee Computational Systems Bioinformatics Conference, Csb. Ieee Computational Systems Bioinformatics Conference. 278-89. PMID 16448021  0.65
2004 Langmead CJ, Yan A, Lilien R, Wang L, Donald BR. A polynomial-time nuclear vector replacement algorithm for automated NMR resonance assignments. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 11: 277-98. PMID 15285893 DOI: 10.1089/1066527041410436  0.663
2004 Langmead CJ, Donald BR. An expectation/maximization nuclear vector replacement algorithm for automated NMR resonance assignments. Journal of Biomolecular Nmr. 29: 111-38. PMID 15014227 DOI: 10.1023/B:Jnmr.0000019247.89110.E6  0.681
2003 Langmead CJ, Donald BR. 3D structural homology detection via unassigned residual dipolar couplings. Proceedings / Ieee Computer Society Bioinformatics Conference. Ieee Computer Society Bioinformatics Conference. 2: 209-17. PMID 16452795 DOI: 10.1109/CSB.2003.1227320  0.654
2003 Langmead CJ, Yan AK, McClung CR, Donald BR. Phase-independent rhythmic analysis of genome-wide expression patterns. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 10: 521-36. PMID 12935342 DOI: 10.1089/10665270360688165  0.688
2002 Langmead CJ, McClung CR, Donald BR. A maximum entropy algorithm for rhythmic analysis of genome-wide expression patterns. Proceedings / Ieee Computer Society Bioinformatics Conference. Ieee Computer Society Bioinformatics Conference. 1: 237-45. PMID 15838140 DOI: 10.1109/CSB.2002.1039346  0.576
2001 Langmead CJ, Donald BR. Extracting structural information using time-frequency analysis of protein NMR data Proceedings of the Annual International Conference On Computational Molecular Biology, Recomb. 164-175.  0.633
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