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Ключевое слово modeling [973 articles]

Recent papers classified by the tag modeling.
  • A First-Principles Model of Early Evolution: Emergence of Gene Families, Species, and Preferred Protein Folds
    PLoS Computational Biology, Vol. 3, No. 7. (1 July 2007), e139.
    by Konstantin B Zeldovich, Peiqiu Chen, Boris E Shakhnovich, Eugene I Shakhnovich
    posted to evolution folding gene modeling protein specy by zwang on 2007-08-28 07:39:34 as ** along with 6 people and 1 group BioNica grahamc cjeans Jporci farhat biinins ParkinsonLab_at_MaRS
  • A modular network model of aging
    Mol Syst Biol, Vol. 3 (4 December 2007)
    by Huiling Xue, Bo Xian, Dong Dong, Kai Xia, Shanshan Zhu, Zhongnan Zhang, Lei Hou, Qingpeng Zhang, Yi Zhang, Jing-Dong J Han
    posted to modeling network by zwang on 2007-12-05 10:50:12 as ** along with 8 people tmmurali muraken grahamc cjeans biehl mingzhi renatomilani dap5087
  • From Pathways Databases to Network Models of Switching Behavior
    PLoS Computational Biology, Vol. 3, No. 9. (1 September 2007), e152.
    by Baltazar D Aguda, Andrew B Goryachev
    posted to database modeling network pathway by zwang on 2007-11-02 08:00:02 as ** along with 3 people bayesian julius Ema
  • The Functional Genomics Experiment model (FuGE): an extensible framework for standards in functional genomics
    Nat Biotech, Vol. 25, No. 10. (October 2007), pp. 1127-1133.
    by Andrew R Jones, Michael Miller, Ruedi Aebersold, Rolf Apweiler, Catherine A Ball, Alvis Brazma, James Degreef, Nigel Hardy, Henning Hermjakob, Simon J Hubbard, Peter Hussey, Mark Igra, Helen Jenkins, Randall K Julian, Kent Laursen, Stephen G Oliver, Norman W Paton, Susanna-Assunta Sansone, Ugis Sarkans, Christian J Stoeckert, Chris F Taylor, Patricia L Whetzel, Joseph A White, Paul Spellman, Angel Pizarro
    posted to function genome insilico modeling by zwang on 2007-10-11 17:03:39 as ** along with 3 people alanrw jyuh jfr
  • Ensemble modeling for analysis of cell signaling dynamics
    Nature Biotechnology, Vol. 25, No. 9. (10 September 2007), pp. 1001-1006.
    by Lars Kuepfer, Matthias Peter, Uwe Sauer, Jörg Stelling
    posted to dynamics modeling by zwang on 2007-09-14 04:59:00 as **
  • Evolutionary models for formation of network motifs and modularity in the Saccharomyces transcription factor network.
    PLoS Comput Biol, Vol. 3, No. 10. (26 October 2007), pp. 1993-2002.
    by JJ Ward, JM Thornton
    posted to evolution modeling motif network transcription yeast by zwang on 2007-11-20 08:52:20 as ** along with 2 people cabbagezs grottenolm
  • On State-Space Reduction in Multi-Strain Pathogen Models, with an Application to Antigenic Drift in Influenza A
    PLoS Computational Biology, Vol. 3, No. 8. (1 August 2007), e159.
    by Sergey Kryazhimskiy, Ulf Dieckmann, Simon A Levin, Jonathan Dushoff
    posted to influenza modeling by zwang on 2007-09-03 01:53:41 as * along with 1 person bpb
  • Network-Based Analysis of Affected Biological Processes in Type 2 Diabetes Models
    PLoS Genetics, Vol. 3, No. 6. (1 June 2007), e96.
    by Manway Liu, Arthur Liberzon, Sek W Kong, Weil R Lai, Peter J Park, Isaac S Kohane, Simon Kasif
    posted to modeling network by zwang on 2007-08-29 02:18:26 as * along with 3 people tmmurali ajgentles cabbagezs
  • Biology by numbers: mathematical modelling in developmental biology
    Nat Rev Genet, Vol. 8, No. 5. (May 2007), pp. 331-340.
    by Claire J Tomlin, Jeffrey D Axelrod
    posted to mathematic modeling by zwang on 2007-04-24 15:56:43 as ** along with 1 group Bioinformatics
  • Simulating replica exchange simulations of protein folding with a kinetic network model
    Proceedings of the National Academy of Sciences, Vol. 104, No. 39. (25 September 2007), pp. 15340-15345.
    by Weihua Zheng, Michael Andrec, Emilio Gallicchio, Ronald M Levy
    posted to folding modeling network protein by zwang on 2007-11-01 02:13:25 as **
  • New models of collaboration in genome-wide association studies: the Genetic Association Information Network
    Nat Genet, Vol. 39, No. 9. (2007), pp. 1045-1051.
    posted to genetic genome-wide modeling network by zwang on 2007-09-05 01:53:35 as * along with 3 people jyuh hpiwowar cabbagezs
  • An Evolutionary-Network Model Reveals Stratified Interactions in the V3 Loop of the HIV-1 Envelope
    PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e231.
    by Art F Poon, Fraser I Lewis, Sergei L Pond, Simon D Frost
    posted to evolution interaction modeling network protein by zwang on 2007-12-10 04:40:29 as **** along with 1 person gokhan
  • MORPH: Probabilistic Alignment Combined with Hidden Markov Models of cis-Regulatory Modules
    PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e216.
    by Saurabh Sinha, Xin He
    posted to alignment hmm modeling module regulatory by zwang on 2007-12-10 04:29:31 as *** along with 7 people and 2 groups ana dpollard cjeans maximilianh hpaces Ema uwe EisenLab cis-regulatory-evolution
  • Structured analysis approaches for large Markov chains
    Applied Numerical Mathematics: Transactions of IMACS, Vol. 31, No. 4. (1999), pp. 375-404.
    by Peter Buchholz
    posted to kronecker markov modeling by znmeb on 2007-04-23 23:23:20 as ** along with 1 person peg
  • Multiple structural alignment by secondary structures: algorithm and applications.
    Protein Sci, Vol. 12, No. 11. (November 2003), pp. 2492-2507.
    by O Dror, H Benyamini, R Nussinov, HJ Wolfson
    posted to bioinformatics modeling molecular by ziquje on 2005-02-23 16:18:08 as ** along with 2 people dimka analogAI
  • A quantitative description of membrane current and its application to conduction and excitation in nerve.
    J Physiol, Vol. 117, No. 4. (August 1952), pp. 500-544.
    by AL HODGKIN, AF HUXLEY
    posted to action-potential differential-equations modeling neuron by zibdum on 2007-11-19 03:11:10 as **** along with 8 people and 1 group brocktice mrkrause muraken elferdo suizan lenov mattions kb TulaneCEP
  • Bayesian comparison of spatially regularised general linear models
    Human Brain Mapping, Vol. 28, No. 4. (2007), pp. 275-293.
    by Will Penny, Guillaume Flandin, Nelson Trujillo-Barreto
    posted to bayes jc-hbm modeling by zhi1984 on 2007-03-28 16:50:54 as * along with 1 person rwilliamson
  • An Ontological Model of an Information System
    IEEE Trans. Softw. Eng., Vol. 16, No. 11. (November 1990), pp. 1282-1292.
    by Yair Wand, Ron Weber
    posted to information model modeling system by zemeigo on 2005-10-28 11:47:23 as ** along with 2 people intention23 balduzzi
  • A proposed framework for the analysis and evaluation of business models
    (2004), pp. 210-215.
    by Jean-Paul Van Belle
    posted to evaluation modeling quality by zemeigo on 2005-07-27 08:44:15 as **
  • Evaluating modeling techniques based on models of learning
    Communications of the ACM, Vol. 46, No. 10. (October 2003), pp. 79-84.
    by Andrew Gemino, Yair Wand
    posted to evaluation modeling by zemeigo on 2005-07-27 08:39:04 as **
  • Example-based model synthesis
    (2007), pp. 105-112.
    by Paul Merrell
    posted to modeling by yodha on 2007-05-28 07:10:51 as *****
  • notes Modeling and performance analysis of BitTorrent-like peer-to-peer networks
    SIGCOMM Comput. Commun. Rev., Vol. 34, No. 4. (October 2004), pp. 367-378.
    by Dongyu Qiu, R Srikant
    posted to bittorrent modeling by yishuai on 2005-12-29 12:41:57 as ** along with 5 people and 1 group aliku root p2p-sec jenine fq0520 SITCRC
  • On formal requirements modeling languages: RML revisited
    (1994), pp. 135-147.
    by Sol Greenspan, John Mylopoulos, Alex Borgida
    posted to modeling requirements rml by yijunyu on 2006-12-30 13:15:28 as read
  • Plucked-String Models: From the Karplus-Strong Algorithm to Digital Waveguides and beyond
    Computer Music Journal, Vol. 22, No. 3. (1998), pp. 17-32.
    by Matti Karjalainen, Vesa Välimäki, Tero Tolonen
    posted to modeling physical synthesis by yaxu on 2007-11-29 17:53:25 as read
  • Towards high-quality sound synthesis of the guitar and string instruments
    (1993)
    by M Karjalainen, V Valimaki, Z J'anosy
    posted to modeling physical synthesis by yaxu on 2007-11-29 17:50:54 as *****
  • 10 Criteria for Evaluating Physical Modeling Schemes for Music Creation
    (2003)
    by Nicolas Castagne, Claude Cadoz
    posted to modeling physical by yaxu on 2007-11-29 17:30:05 as *****
  • Physical Modeling of Membranes for Percussion Instruments
    pp. 529-542.
    by Federico Fontana
    posted to modeling physical by yaxu on 2008-01-16 11:49:57 as ****
  • Shape modeling with point-sampled geometry
    ACM Trans. Graph., Vol. 22, No. 3. (July 2003), pp. 641-650.
    by Mark Pauly, Richard Keiser, Leif P Kobbelt, Markus Gross
    posted to geometry modeling point by yalding on 2005-07-25 14:46:06 as ** along with 4 people kutabar krissp cw veal
  • notes Data assimilation (4D-VAR) to forecast flood in shallow-waters with sediment erosion
    Journal of Hydrology, Vol. 300, No. 1-4. (10 January 2005), pp. 114-125.
    by Eric Belanger, Alain Vincent
    posted to assimilation flood modeling by xjlai on 2006-11-27 13:15:11 as **
  • Gene Network Inference via Structural Equation Modeling in Genetical Genomics Experiments.
    Genetics (3 February 2008)
    by Bing Liu, Alberto de la Fuente, Ina Hoeschele
    posted to epistasis genomics modeling by xingxu on 2008-02-24 03:01:20 as ** along with 5 people and 1 group jyuh dpollard raiyar caseybrown smgomez EisenLab
  • Climate Cycles and Forecasts of Cutaneous Leishmaniasis, a Nonstationary Vector-Borne Disease
    PLoS Medicine, Vol. 3, No. 8. (1 August 2006), e295.
    by Luis F Chaves, Mercedes Pascual
    posted to climate leishmania modeling by xingxu on 2008-01-26 18:18:33 as **
  • From classical genetics to quantitative genetics to systems biology: modeling epistasis.
    PLoS genetics, Vol. 4, No. 3. (March 2008)
    by DL Aylor, ZB Zeng
    posted to epistasis modeling quantitative_genetics systems by xingxu on 2008-04-17 12:57:40 as ** along with 1 person jyuh
  • Using Likelihood-Free Inference to Compare Evolutionary Dynamics of the Protein Networks of H. pylori and P. falciparum
    PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e230.
    by Oliver Ratmann, Ole Jørgensen, Trevor Hinkley, Michael Stumpf, Sylvia Richardson, Carsten Wiuf
    posted to bioinformatics evolution malaria modeling network pylori by xingxu on 2008-01-14 18:04:59 as ** along with 3 people zwang hpaces Ema
  • Chaos Theory, Optimal Embedding and Evolutionary Algorithms
    by Viadan Babovic, Maarten Keijzer, Magnus Stefansson
    posted to evolution modeling by xingxu on 2007-08-17 17:32:19 as ** along with 1 person scis0000001
  • Integrative molecular concept modeling of prostate cancer progression
    Nature Genetics, Vol. 39, No. 1. (17 December 2006), pp. 41-51.
    by Scott A Tomlins, Rohit Mehra, Daniel R Rhodes, Xuhong Cao, Lei Wang, Saravana M Dhanasekaran, Shanker Kalyana-Sundaram, John T Wei, Mark A Rubin, Kenneth J Pienta, Rajal B Shah, Arul M Chinnaiyan
    posted to modeling prostate by xingxu on 2007-08-17 16:49:27 as ** along with 5 people srp33 kentsis jfr shigepong daed
  • Pharmacokinetic-pharmacodynamic modeling of the antinociceptive effect of buprenorphine and fentanyl in rats: role of receptor equilibration kinetics.
    J Pharmacol Exp Ther, Vol. 313, No. 3. (June 2005), pp. 1136-1149.
    by A Yassen, E Olofsen, A Dahan, M Danhof
    posted to antinociceptive buprenorphine fentanyl modeling opioid pharmacodynamic pharmacoknetic pk-pd rat by xico on 2007-02-24 02:03:34 as ** along with 1 group WetBiology
  • Structural systems biology: modelling protein interactions
    Nature Reviews Molecular Cell Biology, Vol. 7, No. 3., pp. 188-197.
    by Patrick Aloy, Robert B Russell
    posted to interaction modeling protein structure system by xico on 2006-09-02 00:22:24 as ** along with 17 people and 3 groups chad_davis ana aalibes bicko dgront drastic choonpeng henschel ruvido massivemayhem cat_worth fishtank iris_2001 gvuister lpfernandes Evangelia andreas_foersch structural_bioinformatics Bioinformatics WetBiology
  • Chromophore Channeling in the G-Protein Coupled Receptor Rhodopsin.
    J Am Chem Soc (15 May 2007)
    by Ting Wang, Yong Duan
    posted to activation agonist amber binding ligands md modeling rhodopsin by xdeupi on 2007-05-21 10:04:04 as ***** along with 1 group LabCompMed
  • Computational prediction of atomic structures of helical membrane proteins aided by EM maps.
    Biophys J (11 May 2007)
    by Julio A A Kovacs, Mark Yeager, Ruben Abagyan
    posted to crystallography em membrane_proteins modeling structure by xdeupi on 2007-05-21 09:41:00 as ** along with 1 person and 1 group thaliana LabCompMed
  • notes Protein-Protein Docking with Backbone Flexibility
    Journal of Molecular Biology, Vol. 373, No. 2. (19 October 2007), pp. 503-519.
    by Chu Wang, Philip Bradley, David Baker
    posted to docking flexibility modeling theory by xdeupi on 2008-04-07 14:23:45 as ** along with 3 people and 2 groups barry jwm Ema structural_bioinformatics Bioinformatics
  • notes Protein-Protein Docking with Simultaneous Optimization of Rigid-body Displacement and Side-chain Conformations
    Journal of Molecular Biology, Vol. 331, No. 1. (1 August 2003), pp. 281-299.
    by Jeffrey J Gray, Stewart Moughon, Chu Wang, Ora Schueler-Furman, Brian Kuhlman, Carol A Rohl, David Baker
    posted to dimer docking modeling theory by xdeupi on 2008-04-07 14:18:56 as ** along with 3 people ima bluvsh1 selrac
  • Metal Ion Site Engineering Indicates a Global Toggle Switch Model for Seven-transmembrane Receptor Activation.
    J Biol Chem, Vol. 281, No. 25. (23 June 2006), pp. 17337-17346.
    by CE Elling, TM Frimurer, LO Gerlach, R Jorgensen, B Holst, TW Schwartz
    posted to activation b2ar modeling pro-kink structure switch toggle transmembrane by xdeupi on 2006-07-04 12:17:13 as read along with 1 person and 1 group IrinaMoreira LabCompMed
  • notes Solvation parameters for amino acids
    Journal of Computational Chemistry, Vol. 20, No. 4. (1999), pp. 428-442.
    by Brian J Smith
    posted to solvation modeling by xdeupi on 2007-01-12 12:48:19 as ** along with 1 person and 1 group papatonyhill LabCompMed
  • Catalytic mechanism of cyclophilin as observed in molecular dynamics simulations: pathway prediction and reconciliation of X-ray crystallographic and NMR solution data.
    Protein Sci, Vol. 15, No. 11. (November 2006), pp. 2544-2551.
    by D Trzesniak, WF van Gunsteren
    posted to crystallography dynamics modeling by xdeupi on 2007-02-20 09:52:40 as ** along with 1 group LabCompMed
  • Automatic atom type and bond type perception in molecular mechanical calculations.
    J Mol Graph Model (1 February 2006)
    by Junmei Wang, Wei Wang, Peter A A Kollman, David A A Case
    posted to amber dynamics md modeling by xdeupi on 2006-02-13 15:46:26 as ***** along with 4 people and 1 group dgruiz nigham marcvanhouteghem AndreaColetta LabCompMed
  • Inactive and active states and supramolecular organization of GPCRs: insights from computational modeling.
    J Comput Aided Mol Des, Vol. 20, No. 7-8. (g 2006), pp. 449-461.
    by F Fanelli, PG De Benedetti
    posted to gpcr modeling review by xdeupi on 2007-03-26 10:31:45 as ** along with 1 group LabCompMed
  • Setting up and running molecular dynamics simulations of membrane proteins.
    Methods, Vol. 41, No. 4. (April 2007), pp. 475-488.
    by C Kandt, WL Ash, D Peter Tieleman
    posted to dynamics md membrane modeling review transmembrane by xdeupi on 2007-03-26 10:15:17 as ***** along with 1 person and 2 groups sobolevnrm LabCompMed baker-group
  • Method To Assess Packing Quality of Transmembrane alpha-Helices in Proteins. 1. Parametrization Using Structural Data.
    J Chem Inf Model (20 March 2007)
    by Anton O Chugunov, Valery N Novoseletsky, Dmitry E Nolde, Alexander S Arseniev, Roman G Efremov
    posted to gpcr membrane_proteins modeling structure by xdeupi on 2007-03-26 10:07:02 as ** along with 1 person and 1 group superpyrin LabCompMed
  • Toward the active conformations of rhodopsin and the beta2-adrenergic receptor.
    Proteins, Vol. 56, No. 1. (1 July 2004), pp. 67-84.
    by PR Gouldson, NJ Kidley, RP Bywater, G Psaroudakis, HD Brooks, C Diaz, D Shire, CA Reynolds
    posted to activation b2ar modeling rhodopsin structure by xdeupi on 2006-03-08 14:57:08 as ** along with 1 group LabCompMed
  • Modeling of the complex between transducin and photoactivated rhodopsin, a prototypical G-protein-coupled receptor.
    Biochemistry, Vol. 46, No. 16. (24 April 2007), pp. 4734-4744.
    by GV Nikiforovich, CM Taylor, GR Marshall
    posted to gproteins modeling rhodopsin by xdeupi on 2007-07-11 11:05:58 as ** along with 1 group LabCompMed
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