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guxiyou library [50 articles]

Статьи, недавно добавленные в библиотеку guxiyou .
  • fasta format
    (27 March 2008)
    posted to fasta by guxiyou on 2008-03-27 18:33:01 as **
  • Equation of State Calculations by Fast Computing Machines
    The Journal of Chemical Physics, Vol. 21, No. 6. (1953), pp. 1087-1092.
    by Nicholas Metropolis, Arianna W Rosenbluth, Marshall N Rosenbluth, Augusta H Teller, Edward Teller
    posted to annealing simulated by guxiyou on 2008-03-26 21:50:35 as ** along with 11 people and 1 group naegele jjray petermilner apostola chad_davis tobin mkurc rabio gcalda Akimasa Bc91 LIGO
  • A new algorithm for protein folding in the HP model
    (2002), pp. 876-884.
    by Alantha Newman
    posted to hp-model by guxiyou on 2008-03-26 21:39:32 as **
  • Approximation Algorithms for Protein Folding Prediction (short)
    (1999)
    by Mauri, Pavesi, Piccolboni
    posted to hp-model by guxiyou on 2008-03-26 21:38:18 as **
  • A complete and effective move set for simplified protein folding
    (2003), pp. 188-195.
    by Neal Lesh, Michael Mitzenmacher, Sue Whitesides
    posted to hp move pull by guxiyou on 2008-03-26 21:30:40 as ** along with 1 person ethkim
  • Fast protein folding in the hydrophobic-hydrophilic model within three-eights of optimal
    (1995), pp. 157-168.
    by William E Hart, Sorin Istrail
    posted to approximation hp-model by guxiyou on 2008-03-26 21:24:32 as **
  • On the Complexity of Protein Folding
    Journal of Computational Biology, Vol. 5, No. 3. (1998), pp. 423-466.
    by Pierluigi Crescenzi, Deborah Goldman, Christos H Papadimitriou, Antonio Piccolboni, Mihalis Yannakakis
    posted to bibtex-import by guxiyou on 2008-03-26 21:23:11 as **
  • Protein folding in the hydrophobic-hydrophilic(HP) model is NP-complete
    (1998), pp. 30-39.
    by Bonnie Berger, Tom Leighton
    posted to hp-model by guxiyou on 2008-03-26 21:21:58 as ** along with 1 person ethkim
  • Local Rules for Protein Folding on a Triangular Lattice and Generalized Hydrophobicity in the HP Model
    Journal of Computational Biology, Vol. 4, No. 3. (1997), pp. 275-296.
    by Richa Agarwala, Serafim Batzoglou, Vlado Dancik, Scott E Decatur, Sridhar Hannenhalli, Martin Farach, S Muthukrishnan, Steven Skiena
    posted to bibtex-import by guxiyou on 2008-03-26 21:20:10 as **
  • International Conference on Bioinformatics & Computational Biology, BIOCOMP 2007, Volume II, June 25-28, 2007, Las Vegas Nevada, USA
    (2007)
    edited by Hamid R Arabnia, Mary Q Yang, Jack Y Yang
    posted to bibtex-import by guxiyou on 2008-03-26 21:14:20 as **
  • uShuffle: a Useful Tool for Shuffling Biological Sequences While Preserving the K-let Counts
    (2007), pp. 605-613.
    by Minghui Jiang, James Anderson, Joel Gillespie, Martin Mayne
    edited by Hamid R Arabnia, Mary Q Yang, Jack Y Yang
    posted to bibtex-import by guxiyou on 2008-03-26 21:14:20 as **
  • A 2-approximation for the preceding-and-crossing structured 2-interval pattern problem
    Journal of Combinatorial Optimization, Vol. 13, No. 3. (April 2007), pp. 217-221.
    by Jiang, Minghui
    posted to approximation by guxiyou on 2008-03-26 21:10:21 as **
  • Delta: A Toolset for the Structural Analysis of Biological Sequences on a 3D Triangular Lattice
    Bioinformatics Research and Applications (2007), pp. 518-529.
    by Minghui Jiang, Martin Mayne, Joel Gillespie
    posted to 3d-lattice delta folding rna by guxiyou on 2008-03-26 21:07:47 as **
  • Folding Biological Sequences on a Three-Dimensional Triangular Lattice: Algorithms and Tools
    (2007)
    by Martin Mayne
    posted to thesis by guxiyou on 2008-03-26 21:05:43 as **
  • Delta: a toolset for the structural analysis of biological sequences on a 3D triangular lattic
    by Minghui Jiang, Martin Mayne, Joel Gillespie
    posted to no-tag by guxiyou on 2008-03-26 21:03:27 as **
  • An APL-programmed genetic algorithm for the prediction of RNA secondary structure.
    J Theor Biol, Vol. 174, No. 3. (7 June 1995), pp. 269-280.
    by FH van Batenburg, AP Gultyaev, CW Pleij
    posted to folding genetic prediction rna by guxiyou on 2008-03-26 21:00:01 as **
  • Predicting RNA H-type pseudoknots with the massively parallel genetic algorithm
    Comput. Appl. Biosci., Vol. 13, No. 4. (1 August 1997), pp. 459-471.
    by Bruce A Shapiro, Jin C Wu
    posted to base-triple folding genetic pseudoknots rna by guxiyou on 2008-03-26 20:58:47 as **
  • The computer simulation of RNA folding pathways using a genetic algorithm.
    J Mol Biol, Vol. 250, No. 1. (30 June 1995), pp. 37-51.
    by AP Gultyaev, FH van Batenburg, CW Pleij
    posted to algorithm genetic rna simulation by guxiyou on 2008-03-26 20:57:30 as ** along with 2 people and 1 group condon Hosna beta
  • Prediction of RNA secondary structure, including pseudoknotting, by computer simulation.
    Nucleic Acids Res, Vol. 18, No. 10. (25 May 1990), pp. 3035-3044.
    by JP Abrahams, M van den Berg, E van Batenburg, C Pleij
    posted to carlo folding monte rna simulation by guxiyou on 2008-03-26 20:55:33 as ** along with 1 person and 1 group condon beta
  • An Iterative Loop Matching Approach to the Prediction of RNA Secondary Structures with Pseudoknots
    (2003)
    by Jianhua Ruan, Gary D Stormo, Weixiong Zhang
    posted to iterative loop matching prediction rna by guxiyou on 2008-03-26 20:53:29 as **
  • Grammatically Modeling and Predicting RNA Secondary Structures
    (1995), pp. 67-76.
    by Y Uemura, A Hasegawa, S Kobayashi, T Yokomori
    posted to folding rna tree-adjoining by guxiyou on 2008-03-26 20:45:45 as **
  • Graph-theoretic approach to RNA modeling using comparative data.
    Proc Int Conf Intell Syst Mol Biol, Vol. 3 (1995), pp. 75-80.
    by RB Cary, GD Stormo
    posted to folding max rna weight by guxiyou on 2008-03-26 20:42:15 as **
  • An RNA folding method capable of identifying pseudoknots and base triples
    Bioinformatics, Vol. 14, No. 8. (1 September 1998), pp. 691-699.
    by Je Tabaska, Rb Cary, Hn Gabow, Gd Stormo
    posted to matching maximum weight by guxiyou on 2008-03-26 20:41:26 as ** along with 1 person arcticrasta
  • The varieties of ribonuclease P.
    Trends Biochem Sci, Vol. 17, No. 5. (May 1992), pp. 178-182.
    by SC Darr, JW Brown, NR Pace
    posted to rna by guxiyou on 2008-03-26 20:28:55 as **
  • Self-Splicing of Group I Introns
    Annual Review of Biochemistry, Vol. 59, No. 1. (1990), pp. 543-568.
    by TR Cech
    posted to rna by guxiyou on 2008-03-26 20:27:59 as ** along with 1 person austin
  • Biological Catalysis by RNA
    Annual Review of Biochemistry, Vol. 55, No. 1. (1986), pp. 599-629.
    by TR Cech, BL Bass
    posted to rna by guxiyou on 2008-03-26 20:26:35 as **
  • A gene from the region of the human X inactivation centre is expressed exclusively from the inactive X chromosome
    Nature, Vol. 349, No. 6304. (3 January 1991), pp. 38-44.
    by Carolyn J Brown, Andrea Ballabio, James L Rupert, Ronald G Lafreniere, Markus Grompe, Rossana Tonlorenzi, Huntington F Willard
    posted to rna by guxiyou on 2008-03-26 20:25:38 as **
  • The product of the H19 gene may function as an RNA.
    Mol. Cell. Biol., Vol. 10, No. 1. (1 January 1990), pp. 28-36.
    by CI Brannan, EC Dees, RS Ingram, SM Tilghman
    posted to rna by guxiyou on 2008-03-26 20:24:40 as **
  • Q beta RNA bacteriophage: mapping cis-acting elements within an RNA genome.
    J. Virol., Vol. 64, No. 8. (1 August 1990), pp. 3872-3881.
    by DR Mills, C Priano, PA Merz, BD Binderow
    posted to rna by guxiyou on 2008-03-26 20:22:27 as **
  • Control of prokaryotic translation initiation by mRNA secondary structure
    Vol. 38 (1990), pp. 1-35.
    by MH de Smit, J van Duin
    posted to rna by guxiyou on 2008-03-26 20:20:54 as **
  • bicoid mRNA localization signal: phylogenetic conservation of function and RNA secondary structure
    Development, Vol. 110, No. 1. (1 September 1990), pp. 161-171.
    by PM Macdonald
    posted to rna by guxiyou on 2008-03-26 20:15:02 as **
  • Algorithms and Thermodynamics for RNA Secondary Structure Prediction: A Practical Guide.
    (1999)
    by DM&DT Zuker
    edited by JB&B Barciszewski
    posted to folding model rna thermodynamic by guxiyou on 2008-03-26 19:51:31 as ** along with 1 person evaf
  • Predicting RNA Secondary Structures with Arbitrary Pseudoknots by Maximizing the Number of Stacking Pairs
    (2001)
    by Samuel Ieong, Ming-Yang Kao, Tak-Wah Lam, Wing-Kin Sung, Siu-Ming Yiu
    posted to folding pseudoknots rna subset by guxiyou on 2008-03-26 19:40:28 as **
  • RNA pseudoknot prediction in energy-based models.
    J Comput Biol, Vol. 7, No. 3-4. (2000), pp. 409-427.
    by RB Lyngsø, CN Pedersen
    posted to folding np-hard pseudoknots rna by guxiyou on 2008-03-26 19:38:45 as ** along with 4 people and 1 group evaf arcticrasta condon Hosna beta
  • Tree adjoining grammars for RNA structure prediction
    Theoretical Computer Science, Vol. 210, No. 2. (17 January 1999), pp. 277-303.
    by Yasuo Uemura, Aki Hasegawa, Satoshi Kobayashi, Takashi Yokomori
    posted to folding pseudoknots rna by guxiyou on 2008-03-26 19:35:41 as ** along with 3 people and 1 group condon Hosna Kiarostami beta
  • A dynamic programming algorithm for RNA structure prediction including pseudoknots.
    J Mol Biol, Vol. 285, No. 5. (5 February 1999), pp. 2053-2068.
    by E Rivas, SR Eddy
    posted to folding pseudoknot rna by guxiyou on 2008-03-26 19:34:35 as ** along with 9 people and 1 group evaf balajis eckart_bindewald arcticrasta dquest condon Hosna jarasch physics beta
  • Dynamic programming algorithms for RNA secondary structure prediction with pseudoknots
    Discrete Appl. Math., Vol. 104, No. 1-3. (2000), pp. 45-62.
    by Tatsuya Akutsu
    posted to folding pseudoknots rna by guxiyou on 2008-03-26 19:33:16 as **
  • Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information.
    Nucleic Acids Res, Vol. 9, No. 1. (10 January 1981), pp. 133-148.
    by M Zuker, P Stiegler
    posted to no-pseudoknot by guxiyou on 2008-03-26 19:30:37 as ** along with 5 people and 2 groups evaf marcius arcticrasta mtagaya Hosna BioinfoCIPF SGU-CIPF
  • Algorithms for Loop Matchings
    SIAM Journal on Applied Mathematics, Vol. 35, No. 1. (July 1978), pp. 68-82.
    by Ruth Nussinov, George Pieczenik, Jerrold R Griggs, Daniel J Kleitman
    posted to no-pseudoknot by guxiyou on 2008-03-26 19:28:31 as **
  • Fast Folding and Comparison of RNA Secondary Structures
    Monatsh.\ Chem., Vol. 125 (1994), pp. 167-188.
    by Ivo L Hofacker, Walter Fontana, Peter F Stadler, Sebastian L Bonhoeffer, Manfred Tacker, Peter Schuster
    posted to folding no-pseudoknot by guxiyou on 2008-03-26 19:20:59 as ** along with 3 people stanley ilh mtw
  • Dominant forces in protein folding.
    Biochemistry, Vol. 29, No. 31. (7 August 1990), pp. 7133-7155.
    by KA Dill
    posted to hp-model by guxiyou on 2008-03-26 19:18:23 as ** along with 1 person bpb
  • Theory for the folding and stability of globular proteins.
    Biochemistry, Vol. 24, No. 6. (12 March 1985), pp. 1501-1509.
    by KA Dill
    posted to hp-model by guxiyou on 2008-03-26 19:17:17 as ** along with 1 person ethkim
  • Description of RNA Folding by "Simulated Annealing">
    Journal of Molecular Biology, Vol. 255, No. 1. (12 January 1996), pp. 254-266.
    by Michael Schmitz, Gerhard Steger
    posted to annealing cooling folding function rna simulated by guxiyou on 2008-03-26 19:12:57 as **
  • Optimization by Simulated Annealing
    Science, Number 4598, 13 May 1983, Vol. 220, 4598 (1983), pp. 671-680.
    by S Kirkpatrick, CD Gelatt, MP Vecchi
    posted to annealing simulated by guxiyou on 2008-03-26 19:10:09 as ** along with 14 people dcastro BragilMassoud ttjoseph filippone martinthesis mseise Bc91 ilapla markusd wvangeit andrewmercader fernandohbc slatre pawelt
  • DNA, RNA, and Protein Folding
    (April 2003), pp. 19-21.
    by Henri Orland
    posted to folding notes rna by guxiyou on 2008-03-26 19:04:29 as **
  • Protein folding on the hexagonal lattice in the HP model.
    J Bioinform Comput Biol, Vol. 3, No. 1. (February 2005), pp. 19-34.
    by M Jiang, B Zhu
    posted to folding hp model protein by guxiyou on 2008-03-26 18:53:07 as **
  • PseudoBase: a database with RNA pseudoknots
    Nucleic Acids Research, Vol. 28, No. 1. (2000), pp. 201-204.
    by Fhdvan Batenburg, AP Gultyaev, CWA Pleij, J Ng, J Oliehoek
    posted to pseudobase pseudoknot by guxiyou on 2008-03-26 18:51:32 as **
  • RNA secondary structure prediction with simple pseudoknots
    (2004), pp. 239-246.
    by Jitender S Deogun, Ruben Donis, Olga Komina, Fangrui Ma
    posted to rna worst-case by guxiyou on 2008-03-26 18:41:16 as **
  • How do RNA folding algorithms work?
    Nature Biotechnology, Vol. 22, No. 11., 1457.
    by Sean R Eddy
    posted to mfold rna scoring structure wiennarna by guxiyou on 2008-03-26 18:25:58 as ** along with 10 people and 2 groups austin cambray evaf marcius tardigrade mtagaya 3times3 cthachuk magnolia maralena BioinfoCIPF SGU-CIPF
  • HotKnots: heuristic prediction of RNA secondary structures including pseudoknots.
    RNA, Vol. 11, No. 10. (October 2005), pp. 1494-1504.
    by J Ren, B Rastegari, A Condon, HH Hoos
    posted to folding heuristic hotknots rna thesis by guxiyou on 2008-03-26 18:07:56 as ** along with 6 people and 3 groups marcius eckart_bindewald arcticrasta condon Hosna jarasch beta BioinfoCIPF SGU-CIPF
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