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	Assessment of the protein-structure refinement category in CASP8. [My Copy] Proteins, Vol. 9999, No. 9999. (20 July 2009), NA. by Justin L. Maccallum, Lan Hua, Michael J. Schnieders, Vijay S. Pande, Matthew P. Jacobson, Ken A. Dill posted to protein_structure casp8 by ppgardne to the group Journal picks on 2009-08-28 09:22:21 as along with 1 person timhubbard
	Evaluation of CASP8 model quality predictions [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2009), NA. by Domenico Cozzetto, Andriy Kryshtafovych, Anna Tramontano posted to protein_structure casp8 by ppgardne to the group Journal picks on 2009-08-28 09:22:07 as
	Analysis of CASP8 targets, predictions and assessment methods [My Copy] Database, Vol. 2009, No. 0. (28 April 2009), bap003. by Shuoyong Shi, Jimin Pei, Ruslan I. Sadreyev, et al.Lisa N. Kinch, Indraneel Majumdar, Jing Tong, Hua Cheng, Bong-Hyun Kim, Nick V. Grishin posted to casp8 by j3xucite on 2009-08-11 18:12:34 as
	CHARMM: A program for macromolecular energy, minimization, and dynamics calculations [My Copy] Journal of Computational Chemistry, Vol. 4, No. 2. (FebruaryFebruary 1983), pp. 187-217. by Bernard R. Brooks, Robert E. Bruccoleri, Barry D. Olafson, David J. States, S. Swaminathan, Martin Karplus posted to casp8 charmm by newton1234 on 2009-05-20 15:42:48 as along with 18 people ckmyo anallam ubcg08l flbarroso nickolay kgutwin r2s2 rpetrenko oceanwind RamuAnandakrishnan tovrstra dfgreen Lombardo_7 dgront mmuecke rabio saravan gisle
	Automated structure prediction of weakly homologous proteins on a genomic scale [My Copy] PNAS, Vol. 101, No. 20. (18 May 2004), pp. 7594-7599. by Yang Zhang, Jeffrey Skolnick posted to casp8 tasser by newton1234 on 2009-05-20 15:38:08 as along with 5 people babakap nigham wouterboomsma j3xucite mirzazadeh
	Working Set Selection Using Second Order Information for Training Support Vector Machines [My Copy] J. Mach. Learn. Res., Vol. 6 (2005), pp. 1889-1918. by Rong E. Fan, Pai H. Chen, Chih J. Lin posted to casp8 learning by newton1234 on 2009-05-20 15:34:07 as along with 1 person awg2
	Comparative protein structure modeling by combining multiple templates and optimizing sequence-to-structure alignments [My Copy] Bioinformatics, Vol. 23, No. 19. (1 October 2007), pp. 2558-2565. by N. Fernandez-Fuentes, B. K. Rai, C. J. Madrid-Aliste, J. E. Fajardo, A. Fiser posted to alignment casp8 by newton1234 on 2009-05-20 12:05:46 as
	A kinematic view of loop closure [My Copy] J Comput Chem, Vol. 25, No. 4. (March 2004), pp. 510-528. by E. A. Coutsias, C. Seok, M. P. Jacobson, K. A. Dill posted to casp8 loop by newton1234 on 2009-05-20 11:19:37 as along with 2 people and 1 group nigham yongzhao TSRI_MGL
	Improved pairwise alignments of proteins in the Twilight Zone using local structure predictions [My Copy] Bioinformatics, Vol. 22, No. 4. (15 February 2006), pp. 413-422. by Yao-Ming Huang, Christopher Bystroff posted to alignment casp8 by newton1234 on 2009-05-15 14:59:27 as along with 1 person and 2 groups marcius BioinfoCIPF SGU-CIPF
	A structural explanation for the twilight zone of protein sequence homology [My Copy] Structure, Vol. 4, No. 10. (15 October 1996), pp. 1123-1127. by S. Y. Chung, S. Subbiah posted to casp8 by newton1234 on 2009-05-15 14:57:24 as
	Twilight zone of protein sequence alignments [My Copy] Protein Eng, Vol. 12, No. 2. (February 1999), pp. 85-94. by B. Rost posted to alignment casp8 by newton1234 on 2009-05-15 14:53:00 as along with 6 people cambray viktor21614 chad_davis ffranca sgoetz bicko
	High accuracy template based modeling by global optimization [My Copy] Proteins, Vol. 69 Suppl 8, No. 9999. (2007), pp. 83-89. by Keehyoung Joo, Jinwoo Lee, Sunjoong Lee, Joo-Hyun Seo, Sung J. Lee, Jooyoung Lee posted to casp8 modeling by newton1234 on 2009-05-14 20:05:49 as along with 1 person r2s2
	Assessment of CASP7 predictions for template-based modeling targets [My Copy] Proteins, Vol. 69 Suppl 8 (2007), pp. 38-56. by J. Kopp, L. Bordoli, J. N. Battey, F. Kiefer, T. Schwede posted to assessment casp8 by newton1234 on 2009-05-14 19:45:23 as along with 2 people granujilla janasont
	Using multiple templates to improve quality of homology models in automated homology modeling [My Copy] Protein Sci, Vol. 17, No. 6. (1 June 2008), pp. 990-1002. by Per Larsson, Bjorn Wallner, Erik Lindahl, Arne Elofsson posted to casp8 modeling by newton1234 on 2009-05-14 19:43:15 as along with 1 person zwang
	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 casp8 modeling score by newton1234 on 2009-05-14 19:39:14 as along with 3 people krapnik dgront kgutwin
	TM-align: a protein structure alignment algorithm based on the TM-score. [My Copy] Nucleic acids research, Vol. 33, No. 7. (22 April 2005), pp. 2302-2309. by Yang Zhang, Jeffrey Skolnick posted to casp8 tmalign zhang by newton1234 on 2009-05-14 19:36:59 as along with 7 people maria_hauser operon joseolucha mijam reyez pjcite granujilla
	PISCES: recent improvements to a PDB sequence culling server [My Copy] Nucleic Acids Res, Vol. 33, No. Web Server issue. (1 July 2005) by G. Wang, R. L. Dunbrack posted to casp8 pisces by newton1234 on 2009-05-14 19:33:40 as along with 5 people kaarsinogen bicko blackbart chgjb chad_davis
	Resultants and loop closure [My Copy] Inter. J. Quant. Chem., Vol. 106, No. 1. (2006), pp. 176-189. by Evangelos A. Coutsias, Chaok Seok, Michael J. Wester, Ken A. Dill posted to casp8 loop by newton1234 on 2009-05-14 19:28:51 as
	Re-examination of structure optimization of off-lattice protein AB models by conformational space annealing [My Copy] J. Comput. Chem., Vol. 29, No. 14. (2008), pp. 2479-2484. by Jinwoo Lee, Keehyoung Joo, Seung-Yeon Kim, Jooyoung Lee posted to casp8 csa by newton1234 on 2009-05-14 19:22:36 as
	Study of protein-protein interaction using conformational space annealing [My Copy] Proteins, Vol. 60, No. 2. (2005), pp. 257-262. by Kyoungrim Lee, Jaehyun Sim, Jooyoung Lee posted to casp8 csa docking by newton1234 on 2009-05-14 19:16:42 as
	Unbiased global optimization of Lennard-Jones clusters for N $≤$ 201 using the conformational space annealing method [My Copy] Phys. Rev. Lett., Vol. 91, No. 8. (22 August 2003) by J. Lee, I. H. Lee, J. Lee posted to casp8 csa by newton1234 on 2009-05-14 19:13:05 as
	All-atom chain-building by optimizing MODELLER energy function using conformational space annealing [My Copy] Proteins, Vol. 9999, No. 9999. (2009), NA. by Keehyoung Joo, Jinwoo Lee, Joo-Hyun Seo, Kyoungrim Lee, Byung-Gee Kim, Jooyoung Lee posted to casp8 modeling modeller by newton1234 on 2009-05-14 19:06:20 as
	Multiple sequence alignment by conformational space annealing [My Copy] Biophys. J., Vol. 95, No. 10. (15 November 2008), pp. 4813-4819. by K. Joo, J. Lee, I. Kim, S. J. Lee, J. Lee posted to alignment casp8 msa by newton1234 on 2009-05-14 19:04:55 as
	Comparative protein modelling by satisfaction of spatial restraints [My Copy] Journal of molecular biology, Vol. 234, No. 3. (5 December 1993), pp. 779-815. by A. Sali, T. L. Blundell posted to casp8 modeling by newton1234 on 2009-05-14 19:02:45 as along with 17 people krapnik bmduggan pjcite viktor21614 mijam dimka vavi bicko chad_davis ttjoseph skhadar dgront rabio massivemayhem medic0747 sebk granujilla
	A multi-template combination algorithm for protein comparative modeling [My Copy] BMC Structural Biology, Vol. 8 (17 March 2008), 18. by Jianlin Cheng posted to casp8 modeling by newton1234 on 2009-05-14 18:59:27 as along with 1 person biehl
	LOMETS: a local meta-threading-server for protein structure prediction [My Copy] Nucleic Acids Res. In Nucl. Acids Res., Vol. 35, No. 10. (3 May 2007), pp. gkm251-3382. by S. Wu, Y. Zhang posted to casp8 meta server by newton1234 on 2009-05-14 18:42:57 as along with 1 person dfdong
	GeneSilico protein structure prediction meta-server [My Copy] Nucleic Acids Res., Vol. 31, No. 13. (1 July 2003), pp. 3305-3307. by M. A. Kurowski, J. M. Bujnicki posted to casp8 meta modeling by newton1234 on 2009-05-14 18:42:01 as along with 2 people flbarroso dgront
	3D-Jury: a simple approach to improve protein structure predictions [My Copy] Bioinformatics, Vol. 19, No. 8. (22 May 2003), pp. 1015-1018. by K. Ginalski, A. Elofsson, D. Fischer, L. Rychlewski posted to casp8 modeling server by newton1234 on 2009-05-14 18:37:37 as along with 6 people mcbla rabio karbak dgront schuylrp mijam
	Assessment of CASP7 predictions in the high accuracy template-based modeling category [My Copy] Proteins, Vol. 69 Suppl 8 (2007), pp. 27-37. by R. J. Read, G. Chavali posted to assessment casp7 casp8 by newton1234 on 2009-05-14 18:34:47 as
	Protein structure prediction and structural genomics [My Copy] Science, Vol. 294, No. 5540. (5 October 2001), pp. 93-96. by D. Baker, A. Sali posted to casp8 modeling by newton1234 on 2009-05-14 18:26:18 as along with 12 people and 2 groups krapnik mijam saunders taikoo ana vavi dgront sriram_s mirzazadeh mingzhi granujilla janasont structural_bioinformatics Bioinformatics
	Protein folding: from the levinthal paradox to structure prediction [My Copy] J Mol Biol, Vol. 293, No. 2. (22 October 1999), pp. 283-293. by B. Honig posted to casp8 by newton1234 on 2009-05-14 18:23:35 as along with 2 people svozil wouterboomsma
	Theory of protein folding: the energy landscape perspective [My Copy] Annual Review of Physical Chemistry, Vol. 48, No. 1. (1997), pp. 545-600. by J. N. Onuchic, Z. Luthey-Schulten, P. G. Wolynes posted to casp8 landscape by newton1234 on 2009-05-14 18:18:00 as along with 3 people paulschlesinger warlock6x3 rph
	Progress and challenges in protein structure prediction [My Copy] Curr. Opin. Struct. Biol. In Nucleic acids / Sequences and topology, Vol. 18, No. 3. (June 2008), pp. 342-348. by Yang Zhang posted to casp8 modeling zhang by newton1234 on 2009-05-14 18:05:13 as along with 12 people dfdong saunders ameetsoni rodrigofaccioli jperkins hadesnumb kgutwin chad_davis barry phoenixzxl marck zwang
	High-resolution structure prediction and the crystallographic phase problem [My Copy] Nature, Vol. 450, No. 7167. (14 October 2007), pp. 259-264. by Bin Qian, Srivatsan Raman, Rhiju Das, et al.Philip Bradley, Airlie J. McCoy, Randy J. Read, David Baker posted to baker casp8 modeling xray by newton1234 on 2009-05-14 17:57:08 as along with 16 people and 2 groups bmduggan apaydin aheilbut jwm eckart_bindewald ffranca dgront massivemayhem cjeans zwang cactus sobolevnrm boris_aguilar Ema chenway ardalby baker-group OPIG
	A novel method for predicting and using distance constraints of high accuracy for refining protein structure prediction [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 77, No. 1. (24 March 2009), pp. 220-234. by Tianyun Liu, Jeremy A. A. Horst, Ram Samudrala posted to casp8 modeling by newton1234 on 2009-05-14 17:54:57 as along with 2 people and 1 group AliC j3xucite Orengo Group Journal Picks
	I-TASSER server for protein 3D structure prediction [My Copy] BMC Bioinformatics, Vol. 9 (23 January 2008), 40. by Yang Zhang posted to casp7 casp8 i-tasser server zhang by saunders on 2009-01-15 15:03:06 as along with 5 people chad_davis mkurc rabio zwang mclarenv
	CASP8 polymorphisms, estrogen and progesterone receptor status, and breast cancer risk. [My Copy] Breast cancer research and treatment, Vol. 110, No. 2. (July 2008), pp. 387-393. by S. Han, K. M. Lee, J. Y. Choi, et al.S. K. Park, J. Y. Lee, J. E. Lee, D. Y. Noh, S. H. Ahn, W. Han, D. H. Kim, Y. C. Hong, E. Ha, K. Y. Yoo, D. Kang posted to breast casp8 genetics korean by misonneh on 2008-09-24 19:45:37 as along with 1 person Zephyrus
	A graph-theory algorithm for rapid protein side-chain prediction [My Copy] Protein Sci, Vol. 12, No. 9. (September 2003), pp. 2001-2014. by A. A. Canutescu, A. A. Shelenkov, R. L. Dunbrack posted to casp8 sidechain by newton1234 on 2008-07-16 09:05:13 as along with 11 people oceanwind mcbla karbak nigham bicko blackbart bluvsh1 rsantana mijam jwm carlk
	Prediction of protein tertiary structure using PROFESY, a novel method based on fragment assembly and conformational space annealing [My Copy] Proteins, Vol. 56, No. 4. (1 September 2004), pp. 704-714. by J. Lee, S. Y. Kim, K. Joo, I. Kim, J. Lee posted to casp8 csa optimization by newton1234 on 2008-06-17 22:55:43 as
	Energy-based de novo protein folding by conformational space annealing and an off-lattice united-residue force field: Application to the 10-55 fragment of staphylococcal protein A and to apo calbindin D9K [My Copy] Proc. Natl. Acad. Sci., Vol. 96, No. 5. (2 March 1999), pp. 2025-2030. by Jooyoung Lee, Adam Liwo, Harold A. Scheraga posted to casp8 csa optimization by newton1234 on 2008-06-17 21:39:17 as along with 1 person krapnik
	New optimization method for conformational energy calculations on polypeptides: Conformational space annealing [My Copy] J. Comput. Chem., Vol. 18, No. 9. (1997), pp. 1222-1232. by Jooyoung Lee, Harold A. Scheraga, S. Rackovsky posted to casp8 csa optimization by newton1234 on 2008-06-17 21:35:24 as along with 1 person dgront
	On the complexity of multiple sequence alignment [My Copy] J. Comput. Biol., Vol. 1, No. 4. (1994), pp. 337-348. by L. Wang, T. Jiang posted to alignment casp8 msa by newton1234 on 2008-06-17 21:03:46 as along with 5 people bertelsen Lombardo_7 sebk treangen yylin
	COFFEE: an objective function for multiple sequence alignments. [My Copy] Bioinformatics, Vol. 14, No. 5. (June 1998), pp. 407-422. by C. Notredame, L. Holm, D. G. Higgins posted to alignment casp8 msa by newton1234 on 2008-06-17 21:02:50 as
	Recent progress in multiple sequence alignment: a survey [My Copy] Pharmacogenomics, Vol. 3, No. 1. (January 2002), pp. 131-144. by C. Notredame posted to alignment casp8 msa by newton1234 on 2008-06-17 20:58:54 as along with 1 person akshayk

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