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タグ: gibbs [83 articles]

Recent papers classified by the tag gibbs.
  • Convergence rates of the voting Gibbs classifier, with application to Bayesian feature selection
    (2001)
    by Andrew Y Ng, Michael I Jordan
    posted to convergence gibbs by vlachmore on 2008-08-04 19:16:25 as **
  • Gibbs Sampling Methods for Stick Breaking Priors
    Journal of the American Statistical Association (March 2001), pp. 161-173.
    by H Ishwaran, James
    posted to blocked gibbs non-parametric sampling by vlachmore on 2008-08-10 21:45:48 as **
  • Explaining the Gibbs Sampler
    The American Statistician, Vol. 46, No. 3. (1992), pp. 167-174.
    by George Casella, Edward I George
    posted to gibbs sampling by vlachmore on 2008-08-03 13:33:31 as ** along with 9 people bayes thijswesterveld fishtank navil seitentaisei adamsi abbie_riner pcarbo bhaddow
  • Retrospective Markov chain Monte Carlo methods for Dirichlet process hierarchical models
    Biometrika, Vol. 95, No. 1. (6 March 2008), pp. 169-186.
    by Papaspiliopoulos, Omiros, Roberts, O Gareth
    posted to gibbs sampling by vlachmore on 2008-08-11 14:02:52 as **
  • Thermodynamic Inhibition Profile of a Cyclopentyl and a Cyclohexyl Derivative towards Thrombin: The Same but for Different Reasons13
    Angewandte Chemie International Edition, Vol. 46, No. 44. (2007), pp. 8511-8514.
    by Christof Gerlach, Michael Smolinski, Holger Steuber, Christoph a, Andreas Heine, David g, Gerhard Klebe
    posted to gibbs by trmr on 2008-07-02 16:49:11 as **
  • Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment.
    Science, Vol. 262, No. 5131. (8 October 1993), pp. 208-214.
    by CE Lawrence, SF Altschul, MS Boguski, JS Liu, AF Neuwald, JC Wootton
    posted to gibbs by seitentaisei on 2008-01-18 17:42:46 as read along with 6 people dquest AaronDarling johncumbers jguinney xili03 wenhan
  • A Generalized Markov Sampler
    Methodology And Computing In Applied Probability, Vol. 6, No. 1. (March 2004), pp. 29-53.
    by JM Keith, DP Kroese, D Bryant
    posted to gibbs mcmc by seitentaisei on 2008-01-24 23:10:55 as **
  • Using the Gibbs Motif Sampler for phylogenetic footprinting.
    Methods in molecular biology (Clifton, N.J.), Vol. 395 (2007), pp. 403-424.
    by W Thompson, S Conlan, LA McCue, CE Lawrence
    posted to gibbs self by sconlan on 2008-07-03 20:41:31 as read
  • The Gibbs Centroid Sampler.
    Nucleic Acids Res, Vol. 35, No. Web Server issue. (1 July 2007)
    by WA Thompson, LA Newberg, S Conlan, LA McCue, CE Lawrence
    posted to gibbs self by sconlan on 2008-07-03 20:38:06 as read along with 1 person cabbagezs
  • A phylogenetic Gibbs sampler that yields centroid solutions for cis regulatory site prediction.
    Bioinformatics (8 May 2007)
    by Lee A A Newberg, William A A Thompson, Sean Conlan, Thomas M M Smith, Lee Ann A McCue, Charles E E Lawrence
    posted to gibbs self by sconlan on 2008-07-03 20:38:42 as read along with 3 people and 1 group dpollard cjeans siebert EisenLab
  • Rhodopseudomonas palustris regulons detected by cross-species analysis of alphaproteobacterial genomes.
    Applied and environmental microbiology, Vol. 71, No. 11. (November 2005), pp. 7442-7452.
    by S Conlan, C Lawrence, LA McCue
    posted to bacteria environmental gibbs regulation self by sconlan on 2008-07-03 20:35:14 as read
  • Comparison of Thermodynamic Properties of Coarse-Grained and Atomic-Level Simulation Models.
    Chemphyschem, Vol. 8, No. 3. (8 February 2007), pp. 452-461.
    by Riccardo Baron, Daniel Trzesniak, Alex H H de Vries, Andreas Elsener, Siewert J J Marrink, Wilfred F F van Gunsteren
    posted to coarse-grained dynamics entropy fluid gibbs helmoltz hydrocarbons method modeling molecular multiscale reorganization solute solvent thermodynamics by rbaron on 2008-08-05 01:55:58 as read along with 1 person choonpeng
  • Illustration of Bayesian Inference in Normal Data Models Using Gibbs Sampling
    Journal of the American Statistical Association, Vol. 85, No. 412. (1990), pp. 972-985.
    by Alan E Gelfand, Susan E Hills, Amy Racine-Poon, Adrian FM Smith
    posted to bayesian gibbs sampling statistics by plm on 2006-08-17 09:51:22 as ** along with 1 group SAA-HSA
  • notes Specific empirical free energy function for automated docking of carbohydrates to proteins.
    J Comput Chem, Vol. 24, No. 14. (15 November 2003), pp. 1748-1757.
    by A Laederach, PJ Reilly
    posted to gh1 gibbs by papatonyhill on 2006-09-26 02:00:53 as read
  • notes The Blue Obelisk-interoperability in chemical informatics.
    J Chem Inf Model, Vol. 46, No. 3. (n 2006), pp. 991-998.
    by R Guha, MT Howard, GR Hutchison, P Murray-Rust, H Rzepa, C Steinbeck, J Wegner, EL Willighagen
    posted to gibbs openbabel by papatonyhill on 2006-09-26 02:17:09 as read along with 3 people nicklynch dullhunk egonw
  • AMBER, a package of computer programs for applying molecular mechanics, normal mode analysis, molecular dynamics and free energy calculations to simulate the structural and energetic properties of molecules
    Computer Physics Communications, Vol. 91, No. 1-3. (2 September 1995), pp. 1-41.
    by David A Pearlman, David A Case, James W Caldwell, Wilson S Ross, Iii Cheatham, Steve Debolt, David Ferguson, George Seibel, Peter Kollman
    posted to amber field force gibbs model by papatonyhill on 2006-06-14 21:49:12 as **** along with 1 person gruppo
  • A computational procedure for determining energetically favorable binding sites on biologically important macromolecules.
    J Med Chem, Vol. 28, No. 7. (July 1985), pp. 849-857.
    by PJ Goodford
    posted to gibbs by papatonyhill on 2006-09-26 01:40:41 as read along with 3 people tjimenez sim82 GermanErlenkamp
  • notes Force calculations in automated docking: enzyme-substrate interactions in Fusarium oxysporum Cel7B.
    Proteins, Vol. 61, No. 3. (15 November 2005), pp. 590-596.
    by C Mulakala, PJ Reilly
    posted to force gh1 gh7 gibbs by papatonyhill on 2006-09-26 02:14:16 as read
  • notes Binding MOAD (Mother Of All Databases).
    Proteins (21 June 2005)
    by Liegi Hu, Mark L L Benson, Richard D D Smith, Michael G G Lerner, Heather A A Carlson
    posted to gibbs moad by papatonyhill on 2006-09-26 02:15:43 as read along with 6 people and 10 groups BragilMassoud sangeetha shantanu caporaso blackbart higueruelo structural_bioinformatics MathBio Biostatistics Bioinformatics microRNA Computational_Systems_Biology EvolutionaryComputation Computational-Neurobiology biomedical-nlp insilicodrug
  • notes General atomic and molecular electronic structure system
    J. Comput. Chem., Vol. 14, No. 11. (November 1993), pp. 1347-1363.
    by Michael W Schmidt, Kim K Baldridge, Jerry A Boatz, Steven T Elbert, Mark S Gordon, Jan H Jensen, Shiro Koseki, Nikita Matsunaga, Kiet A Nguyen, Shujun Su, Theresa L Windus, Michel Dupuis, John A Montgomery
    posted to gamess gh1 gibbs by papatonyhill on 2006-09-26 02:20:13 as ** along with 2 people kimikazu DanHickstein
  • notes The development of a simple empirical scoring function to estimate the binding constant for a protein-ligand complex of known three-dimensional structure.
    J Comput Aided Mol Des, Vol. 8, No. 3. (June 1994), pp. 243-256.
    by HJ Böhm
    posted to energy gibbs by papatonyhill on 2006-09-26 02:10:27 as read along with 4 people BragilMassoud nachtalp nickolay schlauchi
  • notes Electrostatic effects in proteins: comparison of dielectric and charge models.
    Protein Eng, Vol. 4, No. 8. (December 1991), pp. 903-910.
    by EL Mehler, T Solmajer
    posted to electrostatic gibbs by papatonyhill on 2006-09-26 01:43:19 as read
  • notes Automated docking using a Lamarckian genetic algorithm and an empirical binding free energy function
    Journal of Computational Chemistry, Vol. 19, No. 14. (6 January 1999), pp. 1639-1662.
    by Garrett M Morris, David S Goodsell, Robert S Halliday, Ruth Huey, William E Hart, Richard K Belew, Arthur J Olson
    posted to autodock gh1 gibbs by papatonyhill on 2006-09-26 01:34:59 as read along with 13 people and 1 group dgruiz nachtalp P2324548 yongzhao peprovy tovrstra schlauchi carlescorbi middledomain LamBras andreramme simone UVA_mag_res TSRI_MGL
  • iGibbs: Improving Gibbs motif sampler for proteins by sequence clustering and iterative pattern sampling
    Proteins: Structure, Function, and Bioinformatics, Vol. 66, No. 3. (2007), pp. 671-681.
    by Sun Kim, Zhiping Wang, Mehmet Dalkilic
    posted to clustering gibbs by nklee on 2008-01-22 01:57:53 as **
  • A Comparative Study on Computational Two-Block Motif Detection: Algorithms and Applications.
    Mol Pharm (13 December 2007)
    by Chengpeng Bi, J S Leeder, Carrie A Vyhlidal
    posted to blocks discovery gibbs motif two by nklee on 2007-12-19 21:15:42 as ** along with 1 person maximilianh
  • Phylogenetic footprinting of transcription factor binding sites in proteobacterial genomes.
    Nucleic Acids Res, Vol. 29, No. 3. (1 February 2001), pp. 774-782.
    by L McCue, W Thompson, C Carmack, MP Ryan, JS Liu, V Derbyshire, CE Lawrence
    posted to gibbs phylogenetic sampling by nklee on 2008-01-22 00:36:18 as ** along with 3 people and 1 group dquest adepace pradiptaray EisenLab
  • Modelling spatially correlated data via mixtures: a Bayesian approach
    Journal of the Royal Statistical Society: Series B (Statistical Methodology), Vol. 64, No. 4. (2002), pp. 805-826.
    by Carmen Fernandez, Peter J Green
    posted to gibbs mixtures spatial_correlation by nalf on 2008-06-03 21:37:24 as **
  • Gibbs Sampling in Bayesian Networks
    Artificial Intelligence, Vol. 46, No. 3. (1990), pp. 351-363.
    by Tomas Hrycej
    posted to bayesian_network gibbs by naegele on 2007-12-20 10:27:00 as **
  • Incorporating non-local information into information extraction systems by Gibbs sampling
    (2005), pp. 363-370.
    by Jenny R Finkel, Trond Grenager, Christopher Manning
    posted to gibbs machine-learning by markusd on 2008-08-13 21:04:04 as ** along with 5 people julianpan bhaddow rsantana eegilbert vlachmore
  • Bayesian Computation Via the Gibbs Sampler and Related Markov Chain Monte Carlo Methods
    by AFM Smith, GO Roberts
    posted to gibbs machine-learning by markusd on 2008-05-07 19:34:04 as ** along with 3 people pcarbo icosma delip
  • Monte Carlo Sampling Methods Using Markov Chains and Their Applications
    Biometrika, Vol. 57, No. 1. (1970), pp. 97-109.
    by WK Hastings
    posted to gibbs machine-learning mcmc by markusd on 2008-05-07 16:42:48 as ** along with 5 people bfraser icosma rabio lcigler vplagnol
  • Facilitating the Gibbs Sampler: The Gibbs Stopper and the Griddy-Gibbs Sampler
    Journal of the American Statistical Association, Vol. 87, No. 419. (1992), pp. 861-868.
    by Christian Ritter, Martin A Tanner
    posted to gibbs machine-learning mcmc by markusd on 2008-05-07 16:42:24 as ** along with 1 person icosma
  • Markov Chain Monte Carlo in Practice: A Roundtable Discussion
    The American Statistician, Vol. 52, No. 2. (1998), pp. 93-100.
    by Robert E Kass, Bradley P Carlin, Andrew Gelman, Radford M Neal
    posted to gibbs machine-learning mcmc by markusd on 2008-05-07 16:42:39 as ** along with 4 people ddahlem icosma jrblevin i-stevenson
  • Bayesian Statistics without Tears: A Sampling-Resampling Perspective
    The American Statistician, Vol. 46, No. 2. (1992), pp. 84-88.
    by AFM Smith, AE Gelfand
    posted to gibbs machine-learning mcmc by markusd on 2008-05-07 16:42:12 as ** along with 3 people frohike icosma abbie_riner
  • Markov Chain Monte Carlo Method and Its Application
    by Stephen P Brooks
    posted to gibbs machine-learning mcmc by markusd on 2008-05-07 16:42:57 as ** along with 5 people icosma alexv Xavier delip microserf
  • Metropolized independent sampling with comparisons to rejection sampling and importance sampling
    Statistics and Computing, Vol. 6, No. 2. (1 June 1996), pp. 113-119.
    by Jun S Liu
    posted to gibbs machine-learning mcmc by markusd on 2008-05-07 16:43:09 as ** along with 1 person pcarbo
  • Analysis of a Gibbs sampler method for model-based clustering of gene expression data
    Bioinformatics, Vol. 24, No. 2. (15 January 2008), pp. 176-183.
    by Anagha Joshi, Yves Van de Peer, Tom Michoel
    posted to analysis cluster data expression gibbs by maralena on 2008-01-31 17:24:02 as ** along with 3 people jyuh jfr dps
  • Gibbs topological analysis for estimating phase equilibrium tie lines
    Fluid Phase Equilibria, Vol. 216, No. 1. (15 February 2004), pp. 159-165.
    by Sugata P Tan, Maciej Radosz
    posted to calculation equilibria gibbs by majdula on 2008-04-14 13:14:42 as ****
  • Gibbs Free Energy of Transfer of a Methylene Group in Buffer + Ionic Liquid Biphasic Systems
    Ind. Eng. Chem. Res. (17 May 2008)
    by Oscar Rodríguez, Pedro P Madeira, Eugénia A Macedo
    posted to biphasic buffer gibbs ionic liquid transfer by majdula on 2008-06-04 12:24:53 as ***
  • LOCAL COMPOSITION MODEL FOR THE EXCESS GIBBS ENERGY OF AQUEOUS ELECTROLYTE SYSTEMS.
    AIChE Journal, Vol. 32, No. 3. (1986), pp. 444-454.
    by Chau-Chyun Chen, LB Evans
    posted to electrolytes enrtl equilibria excess gibbs phase thermodynamic by majdula on 2008-04-29 10:33:36 as *****
  • Markov Chain Sampling Methods for Dirichlet Process Mixture Models
    Journal of Computational and Graphical Statistics, Vol. 9, No. 2. (2000), pp. 249-265.
    by Radford M Neal
    posted to dirichlet gibbs by ldietz on 2007-10-19 13:11:40 as **** along with 3 people mshafiei vlachmore bhaddow
  • Rao-Blackwellised Particle Filtering for Dynamic Bayesian Networks
    (2000), pp. 176-183.
    by Arnaud Doucet, Nando de Freitas, Kevin P Murphy, Stuart J Russell
    posted to gibbs by ldietz on 2006-12-07 17:43:56 as *
  • notes Monte Carlo Statistical Methods (Springer Texts in Statistics)
    (26 July 2005)
    by Christian P Robert, George Casella
    posted to gibbs mcmctheory by ldietz on 2007-10-30 11:12:59 as read along with 3 people rds quianominorleo robertlischke
  • Markov Chain Monte Carlo in Practice
    (01 December 1995)
    by WR Gilks
    posted to gibbs mcmctheory by ldietz on 2008-05-01 14:20:16 as read along with 12 people and 1 group rpadams eme Borelli metamerist wasteland93 lcigler Xavier roys fredguilloux abbie_riner markusd przem astro
  • notes Efficient Cosmological Parameter Estimation with Hamiltonian Monte Carlo
    (31 Aug 2006)
    by Amir Hajian
    posted to gibbs mcmctheory by ldietz on 2008-07-15 18:00:33 as ** along with 1 person proportional
  • notes An Introduction to MCMC for Machine Learning
    Machine Learning, Vol. 50, No. 1. (1 January 2003), pp. 5-43.
    by Christophe Andrieu, Nando de Freitas, Arnaud Doucet, Michael I Jordan
    posted to gibbs by ldietz on 2007-05-25 13:14:02 as ** along with 9 people pdlug mshafiei wasteland93 bhaddow dowlingj markusd kozaki robotact delip
  • Hyperparameter estimation in Dirichlet process mixture models
    by By Mike
    posted to dirichlet gibbs by ldietz on 2008-02-05 11:04:53 as **
  • On Bayesian model and variable selection using MCMC
    Statistics and Computing, Vol. 12, No. 1. (1 January 2002), pp. 27-36.
    by Petros Dellaportas, Jonathan J Forster, Ioannis Ntzoufras
    posted to gibbs mcmctheory variableselection by ldietz on 2008-05-01 18:19:16 as ** along with 1 person ddahlem
  • A practical sampling approach for a Bayesian mixture model with unknown number of components
    Statistical Papers, Vol. 48, No. 4. (28 October 2007), pp. 631-653.
    by Liqun Wang, James Fu
    posted to bayes gibbs hierarchical nonparametric by ldietz on 2008-07-03 22:26:48 as ** along with 1 person and 3 groups nojhan EvolutionaryComputation Metaheuristics Optimization
  • Understanding the Metropolis-Hastings Algorithm
    The American Statistician, Vol. 49, No. 4. (1995), pp. 327-335.
    by Siddhartha Chib, Edward Greenberg
    posted to gibbs by ldietz on 2007-09-03 16:29:55 as ** along with 11 people and 2 groups pcarbo icosma adriandefroment leonnovelo i-stevenson rvosa jrw quianominorleo ansobol markusd nojhan FAB-lab Metaheuristics
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