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barry's library [698 articles]

最近录入 barry's 文献库.
  • Cargo transport: molecular motors navigate a complex cytoskeleton
    Current Opinion in Cell Biology, Vol. 20, No. 1. (February 2008), pp. 41-47.
    by Jennifer L Ross, Yusuf M Ali, David M Warshaw
    posted to review molecular_motors kinesin dynein cargo_attachment by barry on 2008-07-18 19:50:57 as ** along with 1 person skv
  • Ras effectors
    Current Opinion in Cell Biology, Vol. 8, No. 2. (April 1996), pp. 197-204.
    by Christopher J Marshall
    posted to review ras by barry on 2008-07-18 19:35:50 as **
  • Farnesyltransferase inhibitors: antineoplastic mechanism and clinical prospects
    Current Opinion in Cell Biology, Vol. 12, No. 2. (1 April 2000), pp. 166-173.
    by George C Prendergast
    posted to review ras farnesyltransferase by barry on 2008-07-18 19:29:39 as read
  • The Ras branch of small Gtpases: Ras family members don't fall far from the tree
    Current Opinion in Cell Biology, Vol. 12, No. 2. (1 April 2000), pp. 157-165.
    by Gary W Reuther, Channing J Der
    posted to review ras protein_sequence by barry on 2008-07-18 19:27:39 as *
  • The importance of stupidity in scientific research
    J Cell Sci, Vol. 121, No. 11. (1 June 2008), 1771.
    by Martin A Schwartz
    posted to essay career advice by barry on 2008-07-16 22:25:46 as **** along with 2 groups structural_bioinformatics McCammon
  • Ras oncogenes: split personalities
    Nat Rev Mol Cell Biol, Vol. 9, No. 7. (July 2008), pp. 517-531.
    by Antoine E Karnoub, Robert A Weinberg
    posted to review ras by barry on 2008-07-15 01:24:50 as *** along with 1 person fpattyn
  • Protein-protein binding is often associated with changes in protonation state
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2007), NA.
    by Aaron C Mason, Jan H Jensen
    posted to titration protein-protein binding by barry on 2008-07-08 01:26:01 as ** along with 4 people and 3 groups bicko chad_davis sobolevnrm RamuAnandakrishnan McCammon structural_bioinformatics baker-group
  • Avian influenza virus, a very sticky situation
    Current Opinion in Chemical Biology, Vol. 12, No. 1. (February 2008), pp. 102-108.
    by Mark von Itzstein
    posted to protein_ligand drug_discovery by barry on 2008-07-08 01:24:41 as ** along with 1 person and 1 group jmccammon McCammon
  • X-ray structure of a prokaryotic pentameric ligand-gated ion channel
    Nature (05 March 2008)
    by Ricarda JC Hilf, Raimund Dutzler
    posted to ion_channel achr by barry on 2008-07-08 01:24:17 as ** along with 2 people and 2 groups neils jmccammon McCammon structural_bioinformatics
  • Association of Aminoglycosidic Antibiotics with the Ribosomal A-Site Studied with Brownian Dynamics
    J. Chem. Theory Comput., Vol. 4, No. 4. (8 April 2008), pp. 549-559.
    by Maciej Długosz, Jan M Antosiewicz, Joanna Trylska
    posted to electrostatics brownian_dynamics by barry on 2008-07-08 01:22:26 as ** along with 1 person and 2 groups sobolevnrm McCammon baker-group
  • Accelerated Superposition State Molecular Dynamics for Condensed Phase Systems
    J. Chem. Theory Comput., Vol. 4, No. 4. (8 April 2008), pp. 560-568.
    by Michele Ceotto, Gary S Ayton, Gregory A Voth
    posted to md_simulation accelerated_md by barry on 2008-07-08 01:21:07 as ** along with 1 group McCammon
  • How Efficient Is Replica Exchange Molecular Dynamics? An Analytic Approach
    J. Chem. Theory Comput., Vol. 4, No. 4. (8 April 2008), pp. 626-636.
    by Hugh Nymeyer
    posted to replica_exchange md_simulation by barry on 2008-07-08 01:17:17 as ** along with 3 people and 3 groups loison sobolevnrm agrossfield McCammon structural_bioinformatics baker-group
  • Protonation free energy levels in complex molecular systems
    Biopolymers, Vol. 9999, No. 9999. (2007), NA.
    by Jan M Antosiewicz
    posted to titration electrostatics by barry on 2008-07-08 01:15:32 as ** along with 1 person and 2 groups sobolevnrm McCammon baker-group
  • Novel Method for Probing the Specificity Binding Profile of Ligands: Applications to HIV Protease
    Chemical Biology & Drug Design, Vol. 71, No. 5. (2008), pp. 387-407.
    by Woody Sherman, Bruce Tidor
    posted to protein_ligand drug_discovery by barry on 2008-07-08 01:14:49 as ** along with 1 person and 2 groups jmccammon McCammon structural_bioinformatics
  • Calculation of protein-ligand binding free energy by using a polarizable potential
    Proceedings of the National Academy of Sciences, Vol. 105, No. 17. (29 April 2008), pp. 6290-6295.
    by Dian Jiao, Pavel A Golubkov, Thomas A Darden, Pengyu Ren
    posted to protein-ligand md_simulation free_energy binding by barry on 2008-07-08 01:12:03 as ** along with 3 people and 3 groups sobolevnrm jmccammon biehl McCammon structural_bioinformatics baker-group
  • From the Cover: A dry ligand-binding cavity in a solvated protein
    Proceedings of the National Academy of Sciences, Vol. 105, No. 17. (29 April 2008), pp. 6296-6301.
    by Johan Qvist, Monika Davidovic, Donald Hamelberg, Bertil Halle
    posted to solvation protein-ligand md_simulation free_energy by barry on 2008-07-08 01:11:30 as ** along with 2 people and 3 groups sobolevnrm jmccammon baker-group McCammon structural_bioinformatics
  • Recognition Dynamics Up to Microseconds Revealed from an RDC-Derived Ubiquitin Ensemble in Solution
    Science, Vol. 320, No. 5882. (13 June 2008), pp. 1471-1475.
    by Oliver F Lange, Nils-Alexander Lakomek, Christophe Fares, Gunnar F Schroder, Korvin F Walter, Stefan Becker, Jens Meiler, Helmut Grubmuller, Christian Griesinger, Bert L de Groot
    posted to protein-protein binding by barry on 2008-07-08 00:52:29 as ** along with 4 people and 2 groups cchang jmccammon higueruelo paulschlesinger McCammon structural_bioinformatics
  • The Poisson-Boltzmann model for tRNA: Assessment of the calculation set-up and ionic concentration cutoff
    Journal of Computational Chemistry, Vol. 29, No. 12. (2008), pp. 1970-1981.
    by Magdalena Gruziel, Pawel Grochowski, Joanna Trylska
    posted to electrostatics by barry on 2008-07-08 00:51:34 as ** along with 2 groups McCammon structural_bioinformatics
  • Protein model refinement using an optimized physics-based all-atom force field
    Proceedings of the National Academy of Sciences, Vol. 105, No. 24. (17 June 2008), pp. 8268-8273.
    by Anna Jagielska, Liliana Wroblewska, Jeffrey Skolnick
    posted to replica_exchange coarse_grain by barry on 2008-07-08 00:49:57 as ** along with 3 people and 2 groups jmccammon zwang RamuAnandakrishnan McCammon structural_bioinformatics
  • Pathway and Endpoint Free Energy Calculations for Cyclic Nucleotide Binding to HCN Channels
    Biophys. J., Vol. 94, No. 12. (15 June 2008), pp. L90-92.
    by Lei Zhou, Steven A Siegelbaum
    posted to protein-ligand md_simulation free_energy electrostatics binding by barry on 2008-07-08 00:49:17 as ** along with 1 person and 1 group jmccammon McCammon
  • BIOCHEMISTRY: Metamorphic Proteins
    Science, Vol. 320, No. 5884. (27 June 2008), pp. 1725-1726.
    by Alexey G Murzin
    posted to review protein_structure protein_dynamics by barry on 2008-07-07 23:55:32 as ** along with 1 person and 1 group marck structural_bioinformatics
  • The GAP arginine finger movement into the catalytic site of Ras increases the activation entropy
    Proceedings of the National Academy of Sciences, Vol. 105, No. 17. (29 April 2008), pp. 6260-6265.
    by Carsten Kotting, Angela Kallenbach, Yan Suveyzdis, Alfred Wittinghofer, Klaus Gerwert
    posted to ras ntpases by barry on 2008-07-02 00:26:01 as ** along with 2 people aip samjlord
  • A Simple Model of Backbone Flexibility Improves Modeling of Side-chain Conformational Variability
    Journal of Molecular Biology, Vol. 380, No. 4. (18 July 2008), pp. 757-774.
    by Gregory D Friedland, Anthony J Linares, Colin A Smith, Tanja Kortemme
    posted to protein_structure protein_dynamics by barry on 2008-06-30 17:35:43 as **
  • The 2006 Automated Function Prediction Meeting
    BMC Bioinformatics, Vol. 8, No. Suppl 4. (2007)
    by Ana Rodrigues, Barry Grant, Adam Godzik, Iddo Friedberg
    posted to review mine afp by barry on 2008-06-26 20:06:58 as read
  • Do's and don't's of poster presentation.
    Biophysical journal, Vol. 71, No. 6. (December 1996), pp. 3527-3529.
    by SM Block
    posted to poster guide by barry on 2008-06-24 18:19:11 as **
  • Mortal Sins in Poster Presentations
    SICB Newsletter (Fall 1997)
    by Thomas G Wolcott
    posted to poster guide by barry on 2008-06-24 18:17:08 as ** along with 1 person Torsten_Holmer
  • Poster Presentations as a Genre in Knowledge Communication: A Case Study of Forms, Norms, and Values
    Science Communication, Vol. 28, No. 3. (1 March 2007), pp. 347-376.
    by Anu Macintosh-Murray
    posted to poster guide by barry on 2008-06-24 18:12:30 as **
  • Principal components analysis of protein structure ensembles calculated using NMR data
    Journal of Biomolecular NMR, Vol. 20, No. 1. (1 May 2001), pp. 61-70.
    by Peter Howe
    posted to pca nmr by barry on 2008-06-23 22:20:54 as **
  • RNA dynamics: it is about time
    Current Opinion in Structural Biology, Vol. In Press, Corrected Proof
    by Hashim M Al-Hashimi, Nils G Walter
    posted to rna_dynamics rna review nice_figure by barry on 2008-06-17 18:18:55 as ** along with 1 person ruvido
  • notes Mapping the Nucleotide and Isoform-Dependent Structural and Dynamical Features of Ras Proteins
    Structure, Vol. 16, No. 6. (11 June 2008), pp. 885-896.
    by Alemayehu A Gorfe, Barry J Grant, Andrew J Mccammon
    posted to ras protein_structure protein_dynamics pca ntpases mine md_simulation by barry on 2008-06-10 22:34:01 as read along with 2 groups structural_bioinformatics Bioinformatics
  • Microarray learning with ABC.
    Biostatistics (14 June 2007)
    by Dhammika Amaratunga, Javier Cabrera, Vladimir Kovtun
    posted to microarrays clustering by barry on 2008-06-09 22:24:19 as ** along with 1 person and 1 group jfr Bioinformatics
  • Structural Basis of the Honey Bee PBP Pheromone and pH-induced Conformational Change
    Journal of Molecular Biology, Vol. 380, No. 1. (27 June 2008), pp. 158-169.
    by Marion E Pesenti, Silvia Spinelli, Valérie Bezirard, Loïc Briand, Jean-Claude Pernollet, Mariella Tegoni, Christian Cambillau
    posted to protein_structure protein_dynamics docking by barry on 2008-06-09 17:43:48 as **
  • notes Kinesin-8 molecular motors: putting the brakes on chromosome oscillations
    Trends in Cell Biology, Vol. In Press, Corrected Proof
    by Melissa K Gardner, David J Odde, Kerry Bloom
    posted to review kinesin kin8 by barry on 2008-06-02 19:54:52 as *
  • Structural dynamics of the microtubule binding and regulatory elements in the kinesin-like calmodulin binding protein
    Journal of Structural Biology, Vol. In Press, Corrected Proof
    by Maia V Vinogradova, Galina G Malanina, Vaka S Reddy, Anireddy S Reddy, Robert J Fletterick
    posted to protein_structure kinesin by barry on 2008-06-02 19:41:22 as **
  • notes Conformational dynamics of loops L11 and L12 of kinesin as revealed by spin-labeling EPR
    Biochemical and Biophysical Research Communications, Vol. 364, No. 3. (21 December 2007), pp. 620-626.
    by Masafumi D Yamada, Shinsaku Maruta, Satoshi Yasuda, Kazunori Kondo, Hidekatsu Maeda, Toshiaki Arata
    posted to protein_protein molecular_motors kinesin epr by barry on 2008-06-02 19:35:08 as read
  • Darwinian Evolution on a Chip
    PLoS Biology, Vol. 6, No. 4. (1 April 2008), e85.
    by Brian M Paegel, Gerald F Joyce
    posted to journal_club directed_evolution by barry on 2008-04-29 20:13:18 as **** along with 11 people and 2 groups fdsayre cfleet stevanspringer operon xingxu Minty renatomilani TomQ phoenixzxl melting dlobo Bioinformatics GEB
  • A Microtubule Interactome: Complexes with Roles in Cell Cycle and Mitosis
    PLoS Biology, Vol. 6, No. 4. (1 April 2008), e98.
    by Julian R Hughes, Ana M Meireles, Katherine H Fisher, Angel Garcia, Philip R Antrobus, Alan Wainman, Nicole Zitzmann, Charlotte Deane, Hiroyuki Ohkura, James G Wakefield
    posted to tubulin protein_protein mts by barry on 2008-04-29 19:37:04 as ** along with 1 person and 1 group cdeane Bioinformatics
  • notes Investigating protein dynamics in collective coordinate space.
    Curr Opin Struct Biol, Vol. 9, No. 2. (April 1999), pp. 164-169.
    by A Kitao, N Go
    posted to review protein_structure protein_dynamics pca nma md_simulation by barry on 2008-04-29 00:04:52 as ** along with 4 people and 1 group sobolevnrm choonpeng ttjoseph ffranca baker-group
  • notes Collective protein dynamics in relation to function
    Current Opinion in Structural Biology, Vol. 10, No. 2. (1 April 2000), pp. 165-169.
    by Herman JC Berendsen, Steven Hayward
    posted to review protein_structure protein_dynamics pca nma md_simulation by barry on 2008-04-29 00:03:09 as **
  • Molecular Dynamics Simulation of the Escherichia coli NikR Protein: Equilibrium Conformational Fluctuations Reveal Interdomain Allosteric Communication Pathways
    Journal of Molecular Biology, Vol. In Press, Corrected Proof
    by Michael J Bradley, Peter T Chivers, Nathan A Baker
    posted to md_simulation allosteric by barry on 2008-04-27 22:02:29 as * along with 2 people and 2 groups skoddet sobolevnrm structural_bioinformatics baker-group
  • Development of polyphosphate parameters for use with the AMBER force field
    Journal of Computational Chemistry, Vol. 24, No. 9. (2003), pp. 1016-1025.
    by Kristin L Meagher, Luke T Redman, Heather A Carlson
    posted to md_simulation amber by barry on 2008-04-25 20:57:25 as ** along with 1 person blackbart
  • Comparison of multiple Amber force fields and development of improved protein backbone parameters
    Proteins: Structure, Function, and Bioinformatics, Vol. 65, No. 3. (2006), pp. 712-725.
    by Viktor Hornak, Robert Abel, Asim Okur, Bentley Strockbine, Adrian Roitberg, Carlos Simmerling
    posted to md_simulation ff99sb amber by barry on 2008-04-25 20:56:25 as ** along with 5 people baaden lna allmensch choonpeng kazemi
  • Very fast empirical prediction and rationalization of protein pKa values.
    Proteins, Vol. 61, No. 4. (1 December 2005), pp. 704-721.
    by H Li, AD Robertson, JH Jensen
    posted to pka md_simulation bioinf_methods by barry on 2008-04-25 20:55:37 as ** along with 4 people and 1 group mschofie sunhwan bicko sim82 Bioinformatics
  • Transition networks for modeling the kinetics of conformational change in macromolecules
    Current Opinion in Structural Biology, Vol. 18, No. 2. (April 2008), pp. 154-162.
    by Frank Noé, Stefan Fischer
    posted to protein_dynamics protein_structure review smd by barry on 2008-04-17 19:15:44 as *** along with 2 people and 3 groups paulschlesinger sobolevnrm McCammon structural_bioinformatics baker-group
  • notes Tracing evolutionary pressure
    Bioinformatics, Vol. 24, No. 7. (1 April 2008), pp. 908-915.
    by Kai Ye, Gert Vriend, Adriaan P Ijzerman
    posted to bioinf_methods phylogeny protein_evolution protein_sequence residue_annotation by barry on 2008-04-11 19:13:21 as *** along with 1 person and 2 groups sunhwan structural_bioinformatics Bioinformatics
  • Computational methods for transcriptional regulation.
    Curr Opin Genet Dev, Vol. 15, No. 2. (April 2005), pp. 214-221.
    by ED Siggia
    posted to microarrays review transcription_factor by barry on 2008-04-03 19:42:48 as ** along with 5 people and 2 groups nklee Borelli bertelsen dpollard koller Bioinformatics EisenLab
  • Allostery: Absence of a Change in Shape Does Not Imply that Allostery Is Not at Play.
    J Mol Biol (29 February 2008)
    by Chung-Jung J Tsai, Antonio Del Sol, Ruth Nussinov
    posted to allosteric protein_dynamics protein_structure review by barry on 2008-03-31 18:11:48 as *** along with 6 people and 2 groups cchang higueruelo choonpeng cactus sobolevnrm CameronNeylon McCammon structural_bioinformatics
  • notes What is principal component analysis?
    Nature Biotechnology, Vol. 26, No. 3., pp. 303-304.
    by Markus Ringnér
    posted to pca review by barry on 2008-03-21 19:36:38 as read along with 50 people and 3 groups rrbarb HugoMarcelo tharris rsantana kengg laharrin chrissp100 xingxu dekay23 rvosa i-stevenson dimka dayjm markusd ashko craigwilson06 abbie_riner quianominorleo bibay2004 jfr kristgy pavanghatty rchauhan waghsk hpaces adacier fryanpan sobolevnrm Yanno jyuh operon baaic dullhunk Bevan_Weir zeji gareth massivemayhem zwang GustavoLacerda GeeSharpMinor bmaust zambujo mingzhi starz1010101 maralena wchannels sunhwan jennifermbui kdelavega zhouyu FAB-lab Bioinformatics baker-group
  • notes Compensatory and Long-Range Changes in Picosecond-Nanosecond Main-Chain Dynamics upon Complex Formation: 15N Relaxation Analysis of the Free and Bound States of the Ubiquitin-like Domain of Human Plexin-B1 and the Small GTPase Rac1
    Journal of Molecular Biology, Vol. 377, No. 5. (11 April 2008), pp. 1474-1487.
    by S Bouguet-Bonnet, M Buck
    posted to g_proteins nmr protein-protein rho by barry on 2008-03-21 19:30:36 as **
  • Drug discovery: Schistosome treatment
    Nature, Vol. 452, No. 7185. (20 March 2008), pp. 296-296.
    by Sadaf Shadan
    posted to alex test by barry on 2008-03-21 03:02:22 as *
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