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thamelry's library [22 articles]

Recent papers added to thamelry's library.
  • Protein aggregation and amyloidosis: confusion of the kinds?
    Current Opinion in Structural Biology, Vol. In Press, Corrected Proof
    by Frederic Rousseau, Joost Schymkowitz, Luis Serrano
    posted to aggregation by thamelry on 2006-08-28 09:48:35 as ** along with 3 people and 1 group aalibes caporaso allmensch biomedical-nlp
  • A model for statistical significance of local similarities in structure.
    J Mol Biol, Vol. 326, No. 5. (7 March 2003), pp. 1307-1316.
    by A Stark, S Sunyaev, RB Russell
    posted to sites by thamelry on 2006-03-02 15:29:30 as ***** along with 8 people and 2 groups karbak ana nigham chad_davis nickolay robert scis0000001 siebertm structural_bioinformatics Bioinformatics
  • Development of novel statistical potentials for protein fold recognition.
    Curr Opin Struct Biol, Vol. 14, No. 2. (April 2004), pp. 225-232.
    by NV Buchete, JE Straub, D Thirumalai
    posted to no-tag by thamelry on 2006-03-02 14:56:00 as read along with 1 person mirzazadeh
  • Orientational potentials extracted from protein structures improve native fold recognition.
    Protein Sci, Vol. 13, No. 4. (April 2004), pp. 862-874.
    by NV Buchete, JE Straub, D Thirumalai
    posted to energy neighbors by thamelry on 2006-03-02 14:55:29 as *** along with 1 person kgutwin
  • Protein structure prediction constrained by solution X-ray scattering data and structural homology identification.
    J Mol Biol, Vol. 316, No. 1. (8 February 2002), pp. 173-187.
    by W Zheng, S Doniach
    posted to saxs by thamelry on 2006-02-20 16:08:44 as read along with 1 person dgront
  • Persistence of Native-Like Topology in a Denatured Protein in 8 M Urea
    Science, Vol. 293, No. 5529. (20 July 2001), pp. 487-489.
    by David Shortle, Michael S Ackerman
    posted to folding unfolded_state by thamelry on 2006-02-06 15:51:56 as ***** along with 1 person allmensch
  • Prospects for ab initio protein structural genomics.
    J Mol Biol, Vol. 306, No. 5. (9 March 2001), pp. 1191-1199.
    by KT Simons, C Strauss, D Baker
    posted to 3d_prediction fragment_library genomic_3d_prediction protein rosetta by thamelry on 2006-01-11 09:21:56 as read
  • Dependency between consecutive local conformations helps assemble protein structures from secondary structures using Go potential and greedy algorithm
    Proteins: Structure, Function, and Bioinformatics, Vol. 61, No. 4., pp. 732-740.
    by Pierre Tuffery, Philippe Derreumaux
    posted to fragmnet_library mcmc modelling by thamelry on 2005-12-07 13:47:41 as *** along with 1 person j3xucite
  • A tetrapeptide-based method for polyproline II-type secondary structure prediction
    Proteins: Structure, Function, and Bioinformatics, Vol. 61, No. 4., pp. 763-768.
    by Peter K Vlasov, Anna V Vlasova, Vladimir G Tumanyan, Natalia G Esipova
    posted to no-tag by thamelry on 2005-12-07 10:43:28 as ***
  • Reassessing random-coil statistics in unfolded proteins
    PNAS, Vol. 101, No. 34. (24 August 2004), pp. 12497-12502.
    by Nicholas C Fitzkee, George D Rose
    posted to unfolded_state by thamelry on 2005-11-29 14:40:12 as ***** along with 3 people apaydin allmensch rph
  • Modeling structurally variable regions in homologous proteins with rosetta.
    Proteins, Vol. 55, No. 3. (15 May 2004), pp. 656-677.
    by CA Rohl, CE Strauss, D Chivian, D Baker
    posted to no-tag by thamelry on 2005-11-29 12:18:43 as read along with 5 people and 1 group jwm vavi yongzhao Alan hmk TSRI_MGL
  • New efficient statistical sequence-dependent structure prediction of short to medium-sized protein loops based on an exhaustive loop classification.
    J Mol Biol, Vol. 289, No. 5. (25 June 1999), pp. 1469-1490.
    by J Wojcik, JP Mornon, J Chomilier
    posted to loop_modelling phi_psi by thamelry on 2005-11-29 12:13:58 as **** along with 1 person and 1 group Einat structural_bioinformatics
  • A novel exhaustive search algorithm for predicting the conformation of polypeptide segments in proteins.
    Proteins, Vol. 40, No. 1. (1 July 2000), pp. 135-144.
    by CM Deane, TL Blundell
    posted to loop_modelling phi_psi by thamelry on 2005-11-29 12:12:48 as **** along with 3 people vavi medic0747 cdeane
  • Modeling protein loops using a phi i + 1, psi i dimer database.
    Protein Sci, Vol. 4, No. 7. (July 1995), pp. 1412-1420.
    by S Sudarsanam, RF DuBose, CJ March, S Srinivasan
    posted to loop_modelling phi_psi by thamelry on 2005-11-29 12:09:14 as ****
  • Multiple Alignment Using Hidden Markov Models
    pp. 114-120.
    by Sr Eddy
    edited by C Rawlings, D Clark, R Altman, L Hunter, T Lengauer, S Wodak
    posted to hmm sampling stochastic viterbi by thamelry on 2005-11-22 11:01:12 as read
  • Bayesian adaptive sequence alignment algorithms.
    Bioinformatics, Vol. 14, No. 1. (1998), pp. 25-39.
    by J Zhu, JS Liu, CE Lawrence
    posted to hmm sampling by thamelry on 2005-11-22 10:24:16 as *****
  • HMM sampling and applications to gene finding and alternative splicing.
    Bioinformatics, Vol. 19 Suppl 2 (October 2003)
    by SL Cawley, L Pachter
    posted to hmm sampling by thamelry on 2005-11-21 08:50:27 as read along with 1 person and 1 group kaspermunch Bioinformatics
  • P-SEA: a new efficient assignment of secondary structure from C alpha trace of proteins
    Comput. Appl. Biosci., Vol. 13, No. 3. (1 June 1997), pp. 291-295.
    by G Labesse, N Colloc'h, J Pothier, Jp Mornon
    posted to no-tag by thamelry on 2005-11-17 12:13:06 as **** along with 2 people wouterboomsma j3xucite
  • Transition states for protein folding have native topologies despite high structural variability.
    Nat Struct Mol Biol, Vol. 11, No. 5. (May 2004), pp. 443-449.
    by K Lindorff-Larsen, M Vendruscolo, E Paci, CM Dobson
    posted to folding nmr prediction protein by thamelry on 2005-11-16 15:15:52 as read along with 1 person allmensch
  • notes Toward High-Resolution de Novo Structure Prediction for Small Proteins
    Science, Vol. 309, No. 5742. (16 September 2005), pp. 1868-1871.
    by Philip Bradley, Kira M Misura, David Baker
    posted to modelling protein by thamelry on 2005-11-14 13:53:23 as read along with 8 people and 4 groups BragilMassoud ana barry thaliana jwm vavi marcius gbart structural_bioinformatics Bioinformatics BioinfoCIPF SGU-CIPF
  • Automatic modeling of protein backbones in electron-density maps via prediction of Calpha coordinates.
    Acta Crystallogr D Biol Crystallogr, Vol. 58, No. Pt 12. (December 2002), pp. 2043-2054.
    by TR Ioerger, JC Sacchettini
    posted to c-alpha theta-tau by thamelry on 2005-11-14 13:28:33 as **
  • notes Validation of protein models from Calpha coordinates alone.
    J Mol Biol, Vol. 273, No. 2. (24 October 1997), pp. 371-376.
    by GJ Kleywegt
    posted to c-alpha theta-tau by thamelry on 2005-11-14 13:21:59 as read
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