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noby's library [142 articles]

Recent papers added to noby's library.
  • Finding all cliques of an undirected graph
    Commun. ACM, Vol. 16, No. 9. (1973), pp. 575-577.
    by C Bron, J Kerbosch
    posted to bron-kerbosch clique by noby on 2007-03-14 06:15:58 as ** along with 3 people suteanfx nachtalp koerner
  • Experimental and computational approaches to estimate solubility and permeability in drug discovery and development settings.
    Adv Drug Deliv Rev, Vol. 46, No. 1-3. (1 March 2001), pp. 3-26.
    by CA Lipinski, F Lombardo, BW Dominy, PJ Feeney
    posted to drug by noby on 2007-03-14 06:12:11 as ** along with 2 people BragilMassoud girschick
  • Lead- and drug-like compounds: the rule-of-five revolution
    Drug Discovery Today: Technologies, Vol. 1, No. 4. (December 2004), pp. 337-341.
    by Christopher A Lipinski
    posted to drug by noby on 2007-03-14 06:06:36 as ** along with 3 people and 1 group lindsayBattle caporaso massivemayhem biomedical-nlp
  • Telomeres on the Cdk roller-coaster ride
    Nature Cell Biology, Vol. 9, No. 1., pp. 22-23.
    by Miguel G Ferreira
    posted to jr20070305 by noby on 2007-03-04 15:24:06 as **
  • From the Cover: Why molecules move along a temperature gradient
    PNAS, Vol. 103, No. 52. (26 December 2006), pp. 19678-19682.
    by Stefan Duhr, Dieter Braun
    posted to jr20070305 by noby on 2007-02-20 05:38:26 as **
  • Tsunami inundation modeling for western Sumatra
    PNAS, Vol. 103, No. 52. (26 December 2006), pp. 19673-19677.
    by Jose C Borrero, Kerry Sieh, Mohamed Chlieh, Costas E Synolakis
    posted to jr20070305 by noby on 2007-02-20 05:37:51 as **
  • Neural substrates of envisioning the future
    PNAS, Vol. 104, No. 2. (9 January 2007), pp. 642-647.
    by Karl K Szpunar, Jason M Watson, Kathleen B Mcdermott
    posted to jr20070305 by noby on 2007-02-20 05:31:16 as ** along with 1 person adick
  • Chemically engineered extracts as an alternative source of bioactive natural product-like compounds.
    Proc Natl Acad Sci U S A, Vol. 104, No. 2. (9 January 2007), pp. 441-444.
    by SN López, IA Ramallo, MG Sierra, SA Zacchino, RL Furlan
    posted to jr20070305 by noby on 2007-02-20 05:28:10 as ** along with 3 people cmmorel gracahenriques peni
  • The impact of structural biology on neurobiology
    PNAS, Vol. 104, No. 2. (9 January 2007), pp. 399-400.
    by Ronald E Viola
    posted to jr20070305 by noby on 2007-02-20 05:24:40 as **
  • Freshly excavated fossil bones are best for amplification of ancient DNA
    PNAS, Vol. 104, No. 3. (16 January 2007), pp. 739-744.
    by Melanie Pruvost, Reinhard Schwarz, Virginia B Correia, Sophie Champlot, Severine Braguier, Nicolas Morel, Yolanda Fernandez-Jalvo, Thierry Grange, Eva-Maria Geigl
    posted to jr20070305 by noby on 2007-02-20 05:22:07 as ** along with 2 people and 2 groups dchughes EsepBib G4ID Genetics-of-Gambling
  • Improved evolutionary optimization from genetically adaptive multimethod search
    PNAS, Vol. 104, No. 3. (16 January 2007), pp. 708-711.
    by Jasper A Vrugt, Bruce A Robinson
    posted to jr20070305 by noby on 2007-02-20 05:19:50 as ** along with 1 person BragilMassoud
  • A compensation election for binary social choice
    PNAS, Vol. 104, No. 3. (16 January 2007), pp. 1093-1096.
    by Ryan D Oprea, Vernon L Smith, Abel M Winn
    posted to jr20070305 by noby on 2007-02-19 08:52:15 as **
  • Color naming reflects optimal partitions of color space
    PNAS, Vol. 104, No. 4. (23 January 2007), pp. 1436-1441.
    by Terry Regier, Paul Kay, Naveen Khetarpal
    posted to jr20070305 by noby on 2007-02-19 08:42:08 as ** along with 6 people and 1 group garyfeng baronka topg adick marcbernot rknight15 ReadingLab
  • Chemical trails and the parasites that follow them
    PNAS, Vol. 104, No. 5. (30 January 2007), pp. 1447-1448.
    by Dickson D Despommier
    posted to jr20070305 by noby on 2007-02-19 08:38:29 as **
  • Relational representation in the olfactory system
    PNAS, Vol. 104, No. 6. (6 February 2007), pp. 1953-1958.
    by Thomas A Cleland, Brett A Johnson, Michael Leon, Christiane Linster
    posted to jr20070305 by noby on 2007-02-19 08:36:21 as **
  • Global reconstruction of the human metabolic network based on genomic and bibliomic data.
    Proc Natl Acad Sci U S A (31 January 2007)
    by Natalie C C Duarte, Scott A A Becker, Neema Jamshidi, Ines Thiele, Monica L L Mo, Thuy D D Vo, Rohith Srivas, Bernhard O O Palsson
    posted to jr20070305 by noby on 2007-02-19 08:33:07 as ** along with 4 people and 1 group jyuh balajis alexg raiyar steinmetzlab
  • Sequential Monte Carlo without likelihoods
    PNAS, Vol. 104, No. 6. (6 February 2007), pp. 1760-1765.
    by SA Sisson, Y Fan, Mark M Tanaka
    posted to jr20070305 by noby on 2007-02-19 08:32:07 as ** along with 2 people jyuh adick
  • From the Cover: Complex network analysis of free-energy landscapes
    PNAS, Vol. 104, No. 6. (6 February 2007), pp. 1817-1822.
    by D Gfeller, De Los, A Caflisch, F Rao
    posted to jr20070305 by noby on 2007-02-19 08:25:55 as ** along with 4 people jlh64 marcio nh Diego_Prada
  • Brain shape in human microcephalics and Homo floresiensis
    PNAS, Vol. 104, No. 7. (13 February 2007), pp. 2513-2518.
    by Dean Falk, Charles Hildebolt, Kirk Smith, MJ Morwood, Thomas Sutikna, Jatmiko, Wayhu E Saptomo, Herwig Imhof, Horst Seidler, Fred Prior
    posted to jr20070305 by noby on 2007-02-19 08:21:20 as ** along with 2 people EsepBib JMCpaniscus
  • Silencing of estrogen receptor alpha in the ventromedial nucleus of hypothalamus leads to metabolic syndrome
    PNAS, Vol. 104, No. 7. (13 February 2007), pp. 2501-2506.
    by Sergei Musatov, Walter Chen, Donald W Pfaff, Charles V Mobbs, Xue-Jun Yang, Deborah J Clegg, Michael G Kaplitt, Sonoko Ogawa
    posted to jr20070305 by noby on 2007-02-19 08:20:00 as **
  • Detection and avoidance of a natural product from the pathogenic bacterium Serratia marcescens by Caenorhabditis elegans
    PNAS, Vol. 104, No. 7. (13 February 2007), pp. 2295-2300.
    by Elizabeth Pradel, Yun Zhang, Nathalie Pujol, Tohey Matsuyama, Cornelia I Bargmann, Jonathan J Ewbank
    posted to jr20070305 by noby on 2007-02-19 08:17:22 as **
  • Substrate product equilibrium on a reversible enzyme, triosephosphate isomerase
    PNAS, Vol. 104, No. 7. (13 February 2007), pp. 2080-2085.
    by Sharon Rozovsky, Ann E Mcdermott
    posted to jr20070305 by noby on 2007-02-19 08:13:37 as **
  • Graph Transformation in Molecular Biology
    : Formal Methods in Software and Systems Modeling (2005), pp. 116-133.
    by Francesc Rossellã³, Gabriel Valiente
    posted to graph by noby on 2007-02-05 04:50:55 as **
  • Efficient subgraph isomorphism detection: a decomposition approach
    IEEE Transactions on Knowledge and Data Engineering, Vol. 12, No. 2. (2000), pp. 307-323.
    by BT Messmer, H Bunke
    posted to vflib subgraph-isomorphism subgraph by noby on 2007-02-01 07:56:50 as **
  • Finding all cliques of an undirected graph
    Communications of the ACM, Vol. 16, No. 9. (1973), pp. 575-577.
    by C Bron, J Kerbosch
    posted to clique by noby on 2007-02-01 07:48:54 as **
  • An Efficient Branch-and-Bound Algorithm for Finding a Maximum Clique
    : Discrete Mathematics and Theoretical Computer Science (2003), pp. 278-289.
    by Etsuji Tomita, Tomokazu Seki
    posted to graph clique by noby on 2007-02-01 07:28:58 as **
  • Efficient Subgraph Isomorphism Detection: A Decomposition Approach
    IEEE Transactions on Knowledge and Data Engineering, Vol. 12, No. 2. (March 2000), pp. 307-323.
    by Bruno T Messmer, Horst Bunke
    posted to subgraph isomorphism by noby on 2007-01-31 08:33:03 as **
  • EMCSS: A New Method for Maximal Common Substructure Search
    J. Chem. Inf. Model., Vol. 37, No. 5. (22 September 1997), pp. 828-834.
    by T Wang, J Zhou
    posted to search mcs maximal_common_subgraph database by noby on 2007-01-30 08:45:45 as ** along with 1 person nachtalp
  • An Algorithm for Subgraph Isomorphism
    J. ACM, Vol. 23, No. 1. (January 1976), pp. 31-42.
    by JR Ullmann
    posted to subgraph-isomorphism subgraph isomorphism by noby on 2007-01-30 08:40:55 as ** along with 2 people schlauchi egonw
  • Maximum common subgraph isomorphism algorithms for the matching of chemical structures.
    J Comput Aided Mol Des, Vol. 16, No. 7. (July 2002), pp. 521-533.
    by JW Raymond, P Willett
    posted to search mcs maximal_common_subgraph database by noby on 2007-01-30 08:36:23 as ** along with 2 people nachtalp schlauchi
  • Similarity searching in databases of three-dimensional molecules and macromolecules.
    J Chem Inf Comput Sci, Vol. 32, No. 6. (c 1992), pp. 617-630.
    by PJ Artymiuk, PA Bath, HM Grindley, CA Pepperrell, AR Poirrette, DW Rice, DA Thorner, DJ Wild, P Willett, FH Allen
    posted to search mcs maximal_common_subgraph database by noby on 2007-01-30 08:33:00 as **
  • Backtrack Search Algorithms and the Maximal Common Subgraph Problem.
    SOFTWARE-PRACT. AND EXPER., Vol. 12, No. 1. (1982), pp. 23-34.
    by JJ Mcgregor
    posted to bibtex-import by noby on 2007-01-30 08:23:38 as **
  • A (sub)graph isomorphism algorithm for matching large graphs
    Pattern Analysis and Machine Intelligence, IEEE Transactions on, Vol. 26, No. 10. (2004), pp. 1367-1372.
    by LP Cordella, P Foggia, C Sansone, M Vento
    posted to vflib subgraph-isomorphism subgraph isomorphism by noby on 2007-01-30 07:26:10 as ** along with 1 person and 1 group mhay kdl
  • A review of chemical structure retrieval systems
    Journal of Chemometrics, Vol. 1, No. 3. (1987), pp. 139-155.
    by Peter Willett
    posted to subgraph-isomorphism subgraph isomorphism by noby on 2007-01-30 07:14:29 as **
  • Transputer implementations of chemical substructure searching algorithms
    Tetrahedron Computer Methodology, Vol. 1, No. 3. (1988), pp. 207-217.
    by Geoffrey M Downs, Michael F Lynch, Peter Willett, Gordon A Manson, George A Wilson
    posted to subgraph-isomorphism subgraph isomorphism by noby on 2007-01-30 07:01:51 as **
  • A performance comparison of five algorithms for graph isomorphism
    Proc. of the 3rd IAPR TC-15 Workshop on Graph-based Representations in Pattern Recognition (2001), pp. 188-199.
    by P Foggia, C Sansone, M Vento
    posted to nauty graph-isomorphism vflib subgraph-isomorphism by noby on 2007-01-29 05:52:49 as **
  • A(sub) graph isomorphism algorithm for matching large graphs
    IEEE Transactions on Pattern Analysis and Machine Intelligence, Vol. 26, No. 10. (2004), pp. 1367-1372.
    by LP Cordella, P Foggia, C Sansone, M Vento
    posted to vflib subgraph-isomorphism graph-isomorphism by noby on 2007-01-29 05:50:16 as **
  • An improved algorithm for matching large graphs
    Proc. of the 3rd IAPR TC-15 Workshop on Graphbased Representations in Pattern Recognition (2001), pp. 149-159.
    by LP Cordella, P Foggia, C Sansone, M Vento
    posted to vflib subgraph-isomorphism subgraph by noby on 2007-01-29 05:39:41 as **
  • Conformational changes observed in enzyme crystal structures upon substrate binding.
    J Mol Biol, Vol. 346, No. 1. (11 February 2005), pp. 21-28.
    by A Gutteridge, J Thornton
    posted to substrate enzyme by noby on 2007-01-29 05:24:38 as ** along with 5 people and 1 group baaden lna yongzhao alexg gbart TSRI_MGL
  • Understanding nature's catalytic toolkit.
    Trends Biochem Sci (5 October 2005)
    by Alex Gutteridge, Janet M M Thornton
    posted to enzyme by noby on 2007-01-29 05:22:40 as ** along with 10 people and 4 groups sim82 ana jwm Einat alexg gbart eweaver tny siebertm grottenolm structural_bioinformatics Radiation_Damage Stressosome Bioinformatics
  • BioJava: open source components for bioinformatics
    ACM SIGBIO Newsletter, Vol. 20, No. 2. (2000), pp. 10-12.
    by M Pocock, T Down, T Hubbard
    posted to open-bio biojava by noby on 2007-01-29 05:08:04 as ** along with 1 person dgront
  • Biopython: Python tools for computational biology
    ACM SIGBIO Newsletter, Vol. 20, No. 2. (2000), pp. 15-19.
    by B Chapman, J Chang
    posted to bibtex-import by noby on 2007-01-29 05:07:06 as ** along with 1 person skhadar
  • The Cathedral and the Bazaar
    Knowledge, Technology, and Policy, Vol. 12, No. 3. (1999), pp. 23-49.
    by E Raymond
    posted to opensource open-bio by noby on 2007-01-29 04:55:09 as **
  • Ligand selectivity and competition between enzymes in silico.
    Nat Biotechnol, Vol. 22, No. 8. (August 2004), pp. 1039-1045.
    by A Macchiarulo, I Nobeli, JM Thornton
    posted to ligand enzyme by noby on 2007-01-29 04:51:12 as ** along with 4 people BragilMassoud kuhn bicko tny
  • The Bio* toolkits--a brief overview.
    Brief Bioinform, Vol. 3, No. 3. (September 2002), pp. 296-302.
    by H Mangalam
    posted to open-bio bioruby by noby on 2007-01-29 04:17:46 as ** along with 4 people bertelsen chad_davis moborg dullhunk
  • The Chemistry Development Kit (CDK): an open-source Java library for Chemo- and Bioinformatics.
    J Chem Inf Comput Sci, Vol. 43, No. 2. (r 2003), pp. 493-500.
    by C Steinbeck, Y Han, S Kuhn, O Horlacher, E Luttmann, E Willighagen
    posted to open-bio cdk by noby on 2007-01-29 02:56:03 as ** along with 2 people kuhn egonw
  • Recent developments of the chemistry development kit (CDK) - an open-source java library for chemo- and bioinformatics.
    Curr Pharm Des, Vol. 12, No. 17. (2006), pp. 2111-2120.
    by C Steinbeck, C Hoppe, S Kuhn, M Floris, R Guha, EL Willighagen
    posted to open-bio cdk by noby on 2007-01-29 02:55:28 as ** along with 2 people kuhn egonw
  • G-language Genome Analysis Environment: a workbench for nucleotide sequence data mining.
    Bioinformatics, Vol. 19, No. 2. (22 January 2003), pp. 305-306.
    by K Arakawa, K Mori, K Ikeda, T Matsuzaki, Y Kobayashi, M Tomita
    posted to open-bio bioperl by noby on 2007-01-29 02:23:29 as **
  • BioRuby+ChemRuby: An Exploratory Software Project
    GIW 2004 Poster Abstracts, S06 (2005). (October 2005)
    by T Katayama, MC Nakao, N Goto, N Tanaka
    posted to open-bio bioruby by noby on 2007-01-29 02:22:09 as **
  • XyMTeX (Version 2.00) as implementation of the XyM Notation and the XyM Markup Language
    TUB, Vol. 21 (2000), pp. 7-14.
    by Shinsaku Fujita, Nobuya Tanaka
    posted to xym xml linear_notation by noby on 2007-01-29 02:15:03 as ** along with 1 person girschick
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