Tag statpot [37 articles] Export

Recent papers classified by the tag statpot.

	Another look at the conditions for the extraction of protein knowledge-based potentials [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA. by Marcos R. Betancourt posted to statpot by kgutwin on 2009-05-20 19:53:39 as along with 1 person RamuAnandakrishnan
	Effective energy functions for protein structure prediction [My Copy] Current Opinion in Structural Biology, Vol. 10, No. 2. (1 April 2000), pp. 139-145. by T. Lazaridis posted to design post-defense predictions statpot by kgutwin on 2009-05-19 19:19:12 as along with 2 people ckmyo flbarroso
	Empirical potentials and functions for protein folding and binding. [My Copy] Curr Opin Struct Biol, Vol. 7, No. 2. (April 1997), pp. 222-228. by S. Vajda, M. Sippl, J. Novotny posted to post-defense review statpot by kgutwin on 2009-05-19 19:17:05 as along with 2 people and 2 groups chad_davis marcius BioinfoCIPF SGU-CIPF
	A new approach to protein fold recognition [My Copy] Nature, Vol. 358, No. 6381. (2 July 1992), pp. 86-89. by D. T. Jones, W. R. Taylort, J. M. Thornton posted to statpot threading post-defense by kgutwin on 2009-05-19 19:06:44 as along with 4 people georgwachter chad_davis winterschlaefer janasont
	Interrogating protein interaction networks through structural biology. [My Copy] Proc Natl Acad Sci U S A, Vol. 99, No. 9. (30 April 2002), pp. 5896-5901. by P. Aloy, R. B. Russell posted to interactions interprets predictions statpot post-defense by kgutwin on 2009-05-19 19:02:58 as along with 13 people and 3 groups tomhebbron bpcusack ana barry baaden bicko lfriedl chad_davis henschel ruvido cjeans tale Evangelia structural_bioinformatics kdl Bioinformatics
	InterPreTS: protein interaction prediction through tertiary structure. [My Copy] Bioinformatics, Vol. 19, No. 1. (January 2003), pp. 161-162. by P. Aloy, R. B. Russell posted to interactions interprets predictions statpot structure post-defense by kgutwin on 2009-05-19 18:52:27 as along with 6 people baaden bicko chad_davis henschel ruvido Pao-Yang
	Correlation between knowledge-based and detailed atomic potentials: application to the unfolding of the GCN4 leucine zipper. [My Copy] Proteins, Vol. 35, No. 4. (1 June 1999), pp. 447-452. by D. Mohanty, B. N. Dominy, A. Kolinski, C. L. Brooks, J. Skolnick posted to predictions lattice-model bzip statpot structure by kgutwin on 2009-03-19 01:08:24 as
	Improved recognition of native-like protein structures using a combination of sequence-dependent and sequence-independent features of proteins. [My Copy] Proteins, Vol. 34, No. 1. (1 January 1999), pp. 82-95. by K. T. Simons, I. Ruczinski, C. Kooperberg, B. A. Fox, C. Bystroff, D. Baker posted to potential rosetta statpot structure by kgutwin on 2009-02-23 16:27:59 as along with 1 person dgront
	Ab initio folding of terminal segments with secondary structures reveals the fine difference between two closely related all-atom statistical energy functions [My Copy] Protein Sci, Vol. 17, No. 7. (1 July 2008), pp. 1212-1219. by Yuedong Yang, Yaoqi Zhou posted to dfire dope statpot litreview11-2008 by kgutwin to the group KeatingJClub on 2008-12-16 17:49:44 as along with 1 person saunders
	Energy minimizations with a combination of two knowledge-based potentials for protein folding [My Copy] Journal of Computational Chemistry, Vol. 29, No. 10. (2008), pp. 1684-1692. by David de Sancho, Antonio Rey posted to potential statpot litreview11-2008 by kgutwin to the group KeatingJClub on 2008-11-21 23:05:23 as
	Evolutionary potentials: structure specific knowledge-based potentials exploiting the evolutionary record of sequence homologs [My Copy] Genome Biology, Vol. 9, No. 4. (08 April 2008), R68. by Alejandro Panjkovich, Francisco Melo, Marc A. Marti-Renom posted to homologs potential statpot litreview11-2008 by kgutwin to the group KeatingJClub on 2008-11-21 23:04:52 as along with 2 people sebk j3xucite
	Information and discrimination in pairwise contact potentials [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2007), NA. by Armando D. Solis, S. Rackovsky posted to analysis contact correlations information-theory potential statpot litreview11-2008 by kgutwin to the group KeatingJClub on 2008-11-21 23:04:11 as along with 2 people j3xucite RamuAnandakrishnan
	Assessing Side-Chain Perturbations of the Protein Backbone: A Knowledge-Based Classification of Residue Ramachandran Space [My Copy] Journal of Molecular Biology, Vol. 378, No. 3. (02 May 2008), pp. 749-758. by D. Dahl, Z. Bohannan, Q. Mo, M. Vannucci, J. Tsai posted to litreview2008 ramachandran statpot by kgutwin on 2008-11-19 23:22:00 as
	What is a desirable statistical energy functions for proteins and how can it be obtained? [My Copy] Cell Biochemistry and Biophysics, Vol. 46, No. 2. (1 October 2006), pp. 165-174. by Yaoqi Zhou, Hongyi Zhou, Chi Zhang, Song Liu posted to analysis dfire review statpot by kgutwin on 2008-09-04 01:27:21 as
	Anisotropic coarse-grained statistical potentials improve the ability to identify nativelike protein structures [My Copy] The Journal of Chemical Physics, Vol. 118, No. 16. (2003), pp. 7658-7671. by N. V. Buchete, J. E. Straub, D. Thirumalai posted to ori-dep-potential statpot by kgutwin on 2008-09-02 23:13:22 as
	Using data compression for multidimensional distribution analysis [molecular biology] [My Copy] Intelligent Systems, IEEE In Intelligent Systems, IEEE, Vol. 17, No. 3. (2002), pp. 48-54. by K. Onizuka, T. Noguchi, Y. Akiyama, H. Matsuda posted to miyazawa-jernigan ori-dep-potential statpot by kgutwin on 2008-09-02 22:51:39 as
	Orientation-dependent potential of mean force for protein folding [My Copy] The Journal of Chemical Physics, Vol. 123, No. 1. (2005) by Arnab Mukherjee, Prabhakar Bhimalapuram, Biman Bagchi posted to ori-dep-potential statpot by kgutwin on 2008-09-01 17:38:15 as
	Statistical potential for assessment and prediction of protein structures. [My Copy] Protein Sci, Vol. 15, No. 11. (November 2006), pp. 2507-2524. by M. Y. Shen, A. Sali posted to dope reference-state statpot by kgutwin on 2008-09-01 17:25:42 as along with 6 people Anis mijam wouterboomsma j3xucite cdeane dimka
	OPUS-PSP: An Orientation-dependent Statistical All-atom Potential Derived from Side-chain Packing [My Copy] Journal of Molecular Biology, Vol. 376, No. 1. (8 February 2008), pp. 288-301. by Mingyang Lu, Athanasios D. Dousis, Jianpeng Ma posted to all-atom opus ori-dep-potential statpot by kgutwin on 2008-08-29 21:37:05 as along with 3 people mijam j3xucite cdeane
	OPUS-Ca: A knowledge-based potential function requiring only Calpha positions [My Copy] Protein Sci, Vol. 16, No. 7. (1 July 2007), pp. 1449-1463. by Yinghao Wu, Mingyang Lu, Mingzhi Chen, Jialin Li, Jianpeng Ma posted to opus ori-dep-potential statpot by kgutwin on 2008-08-29 21:35:22 as along with 1 person j3xucite
	A New Generation of Statistical Potentials for Proteins [My Copy] Biophys. J., Vol. 90, No. 11. (1 June 2006), pp. 4010-4017. by Y. Dehouck, D. Gilis, M. Rooman posted to correlations statpot by kgutwin on 2008-08-26 23:15:22 as
	How effective for fold recognition is a potential of mean force that includes relative orientations between contacting residues in proteins? [My Copy] The Journal of Chemical Physics, Vol. 122, No. 2. (2005) by Sanzo Miyazawa, Robert L. Jernigan posted to analysis miyazawa-jernigan ori-dep-potential statpot by kgutwin on 2008-08-26 23:11:02 as along with 1 person krapnik
	Dissecting contact potentials for proteins: Relative contributions of individual amino acids. [My Copy] Proteins (19 July 2007) by N-V V. Buchete, J E E. Straub, D Thirumalai posted to analysis reduced statpot by kgutwin on 2008-08-26 20:44:54 as along with 2 people wouterboomsma RamuAnandakrishnan
	Continuous anisotropic representation of coarse-grained potentials for proteins by spherical harmonics synthesis. [My Copy] J Mol Graph Model, Vol. 22, No. 5. (May 2004), pp. 441-450. by N. V. Buchete, J. E. Straub, D. Thirumalai posted to ori-dep-potential statpot by kgutwin on 2008-08-26 20:40:00 as along with 1 person tjimenez
	Orientational potentials extracted from protein structures improve native fold recognition. [My Copy] Protein Sci, Vol. 13, No. 4. (April 2004), pp. 862-874. by N. V. Buchete, J. E. Straub, D. Thirumalai posted to ori-dep-potential statpot by kgutwin on 2008-08-26 20:38:59 as along with 2 people j3xucite thamelry
	Recognizing protein-protein interfaces with empirical potentials and reduced amino acid alphabets [My Copy] BMC Bioinformatics, Vol. 8 (27 July 2007), 270. by Guillaume Launay, Raul Mendez, Shoshana Wodak, Thomas Simonson posted to docking interfaces multiprospector reduced statpot by kgutwin on 2008-08-25 21:08:13 as along with 2 people apaydin grahamc
	Inter-residue and solvent-residue interactions in proteins: a statistical study on experimental structures. [My Copy] Proteins, Vol. 55, No. 1. (1 April 2004), pp. 139-151. by R. Chelli, F. L. Gervasio, P. Procacci, V. Schettino posted to analysis solvent statpot by kgutwin on 2008-08-25 20:54:07 as along with 1 person and 2 groups ana structural_bioinformatics Bioinformatics
	Combination of scoring functions improves discrimination in protein-protein docking. [My Copy] Proteins, Vol. 53, No. 4. (1 December 2003), pp. 840-854. by J. Murphy, D. W. Gatchell, J. C. Prasad, S. Vajda posted to contact docking miyazawa-jernigan statpot structure by kgutwin on 2008-08-15 19:49:02 as along with 3 people ras bicko selrac
	Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction. [My Copy] Protein Sci, Vol. 11, No. 11. (November 2002), pp. 2714-2726. by H. Zhou, Y. Zhou posted to dfire reference-state statpot by kgutwin on 2008-08-15 18:46:34 as along with 3 people newton1234 krapnik dgront
	The dependence of all-atom statistical potentials on structural training database. [My Copy] Biophys J, Vol. 86, No. 6. (June 2004), pp. 3349-3358. by C. Zhang, S. Liu, H. Zhou, Y. Zhou posted to analysis database dfire statpot by kgutwin on 2008-08-15 18:44:13 as along with 1 person Evangelia
	Fold helical proteins by energy minimization in dihedral space and a DFIRE-based statistical energy function. [My Copy] Journal of bioinformatics and computational biology, Vol. 3, No. 5. (October 2005), pp. 1151-1170. by H. Li, Y. Zhou posted to dfire minimization statpot by kgutwin on 2008-08-15 18:43:00 as
	MULTIPROSPECTOR: an algorithm for the prediction of protein-protein interactions by multimeric threading. [My Copy] Proteins, Vol. 49, No. 3. (15 November 2002), pp. 350-364. by L. Lu, H. Lu, J. Skolnick posted to interactions multiprospector predictions statpot threading by kgutwin on 2008-08-15 17:05:47 as along with 6 people and 5 groups ana bicko chad_davis marcius sangeetha ruvido structural_bioinformatics Bioinformatics insilicodrug BioinfoCIPF SGU-CIPF
	Development of unified statistical potentials describing protein-protein interactions. [My Copy] Biophys J, Vol. 84, No. 3. (March 2003), pp. 1895-1901. by H. Lu, L. Lu, J. Skolnick posted to interactions multiprospector predictions statpot structure by kgutwin on 2008-08-15 17:05:08 as along with 8 people kaarsinogen bicko mdimmic chad_davis cjeans selrac iris_2001 wilbur
	Residue frequencies and pairing preferences at protein-protein interfaces. [My Copy] Proteins, Vol. 43, No. 2. (1 May 2001), pp. 89-102. by F. Glaser, D. M. Steinberg, I. A. Vakser, N. Ben-Tal posted to analysis interfaces statpot structure by kgutwin on 2008-08-14 23:08:16 as along with 2 people bicko higueruelo
	DARS (Decoys As the Reference State) Potentials for Protein-Protein Docking. [My Copy] Biophysical journal (1 August 2008) by Gwo-Yu Y. Chuang, Dima Kozakov, Ryan Brenke, Stephen R R. Comeau, Sandor Vajda posted to docking interactions reference-state statpot by kgutwin on 2008-08-11 21:58:32 as along with 1 person reyez
	Inferring ideal amino acid interaction forms from statistical protein contact potentials. [My Copy] Proteins, Vol. 59, No. 1. (1 April 2005), pp. 49-57. by P. Pokarowski, A. Kloczkowski, R. L. Jernigan, N. S. Kothari, M. Pokarowska, A. Kolinski posted to analysis contact reduced statpot by kgutwin on 2008-08-11 21:48:10 as along with 3 people mijam RamuAnandakrishnan krapnik
	Genome-wide prediction of SH2 domain targets using structural information and the FoldX algorithm. [My Copy] PLoS computational biology, Vol. 4, No. 4. (April 2008) by I. E. Sánchez, P. Beltrao, F. Stricher, et al.J. Schymkowitz, J. Ferkinghoff-Borg, F. Rousseau, L. Serrano posted to foldx genome interactions ism predictions statpot structure by kgutwin on 2008-06-20 21:20:47 as along with 2 people eskay cabbagesofdoom

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analysis	9
ori-dep-potential	8
potential	7
predictions	7
structure	7
dfire	6
interactions	6
litreview2008	5
post-defense	5
contact	4
litreview11-2008	4
correlations	3
docking	3
dope	3
miyazawa-jernigan	3
multiprospector	3
reduced	3
reference-state	3
homologs	2
information-theory	2
interfaces	2
interprets	2
opus	2
review	2
threading	2
all-atom	1
bzip	1
database	1
design	1
foldx	1
genome	1
ism	1
lattice-model	1
minimization	1
ramachandran	1
rosetta	1
solvent	1

Tag statpot [37 articles] Export

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