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	Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. [My Copy] Nucleic acids research, Vol. 25, No. 17. (1 September 1997), pp. 3389-3402. by S. F. Altschul, T. L. Madden, A. A. Schäffer, et al.J. Zhang, Z. Zhang, W. Miller, D. J. Lipman posted to no-tag by pjcite on 2009-06-05 21:09:44 as along with 68 people and 5 groups rshe niallhaslam ucbcjbm timhubbard parnell tfuji maria_hauser jbhiatt yylin mgomes BioNica idoerg swp09 kgutwin mcbla cpwardell johanviklund daforerog nlapalu sebk tjimenez shung pwais dakelley knaseanka setar iakes miguel kaarsinogen bjorns bicko jmeppley chad_davis balajis nuke2005 eweaver david_parsons indigoviolet dullhunk robert dgront happy_manatee caporaso treangen kengg manzanita CitoJam jdelcampo aengisch rabio massivemayhem mirzazadeh azazello sujaikumar beatrizfernandez GustavoLacerda siebertm adijr viktor21614 mijam grottenolm bandrewfox edvin newton1234 mariakmejia granujilla marti CharlesM References for 3DSim paper EisenLab biomedical-nlp Microbial-Ecology Plantandetc
	Comparison of probabilistic combination methods for protein secondary structure prediction [My Copy] Bioinformatics, Vol. 20, No. 17. (22 November 2004), pp. 3099-3107. by Yan Liu, Jaime Carbonell, Judith Klein-Seetharaman, Vanathi Gopalakrishnan posted to no-tag by pjcite on 2009-06-05 20:36:52 as
	Improved residue contact prediction using support vector machines and a large feature set. [My Copy] BMC bioinformatics, Vol. 8 (02 April 2007), 113. by Jianlin Cheng, Pierre Baldi posted to no-tag by pjcite on 2009-05-29 13:20:28 as along with 3 people dfdong iaolier ndiaz
	The Nature of Statistical Learning Theory [My Copy] (19 November 1999) by Vladimir N. Vapnik posted to no-tag by pjcite on 2009-05-29 13:18:43 as along with 18 people lbustio bayesian gstiglic brian thefillm yaroslavvb creswick mthomure sdvillal atbrew girschick nmdang navil teesid jung_dalglish ecome jaonary akastrin
	SCRATCH: a protein structure and structural feature prediction server. [My Copy] Nucleic Acids Res, Vol. 33, No. Web Server issue. (1 July 2005) by J. Cheng, A. Z. Randall, M. J. Sweredoski, P. Baldi posted to no-tag by pjcite on 2009-05-29 13:17:30 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 no-tag by pjcite on 2009-05-29 13:14:49 as along with 16 people bmduggan newton1234 viktor21614 mijam dimka vavi bicko chad_davis ttjoseph skhadar dgront rabio massivemayhem medic0747 sebk granujilla
	A Tutorial on Support Vector Machines for Pattern Recognition [My Copy] Data Mining and Knowledge Discovery, Vol. 2, No. 2. (1998), pp. 121-167. by Christopher J. C. Burges posted to no-tag by pjcite on 2009-05-29 13:13:27 as along with 17 people and 4 groups NicholasErho michaelfairley pdlug dcastro mthomure ashgarg katja bundschu atbrew mamadoudiao sajan robincha ajoorabchi girschick markusd pprett eddymier social_navigation ilps ahat generif_paper
	Hierarchical Mixtures of Experts and the EM Algorithm [My Copy] No. AIM-1440. (1993) by Michael I. Jordan, Robert A. Jacobs posted to no-tag by pjcite on 2009-05-29 13:10:10 as along with 3 people scis0000001 jborn Scis0000002
	Gaussian Processes for Regression [My Copy] In Advances in Neural Information Processing Systems 8, Vol. 8 (1996), pp. 514-520. by Christopher K. I. Williams, Carl E. Rasmussen posted to no-tag by pjcite on 2009-05-29 13:08:57 as along with 3 people Cavadini ajbattle DavidSchulz
	GenTHREADER: an efficient and reliable protein fold recognition method for genomic sequences. [My Copy] Journal of molecular biology, Vol. 287, No. 4. (9 April 1999), pp. 797-815. by D. T. Jones posted to no-tag by pjcite on 2009-05-29 13:06:05 as along with 5 people jperkins j3xucite dgront schuylrp janasont
	Protein threading using PROSPECT: design and evaluation. [My Copy] Proteins, Vol. 40, No. 3. (15 August 2000), pp. 343-354. by Y. Xu, D. Xu posted to no-tag by pjcite on 2009-05-29 13:05:15 as
	MODBASE, a database of annotated comparative protein structure models, and associated resources. [My Copy] Nucleic acids research, Vol. 32, No. Database issue. (1 January 2004) by U. Pieper, N. Eswar, H. Braberg, et al.M. S. Madhusudhan, F. P. Davis, A. C. Stuart, N. Mirkovic, A. Rossi, M. A. Marti-Renom, A. Fiser, B. Webb, D. Greenblatt, C. C. Huang, T. E. Ferrin, A. Sali posted to no-tag by pjcite on 2009-05-29 13:04:26 as along with 4 people and 2 groups tjimenez marcius dgront blackbart BioinfoCIPF SGU-CIPF
	Scoring function for automated assessment of protein structure template quality [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 57, No. 4., pp. 702-710. by Yang Zhang, Jeffrey Skolnick posted to no-tag by pjcite on 2009-05-29 13:03:28 as along with 8 people and 2 groups saunders reyez karbak marcius dgront aengisch rabio granujilla BioinfoCIPF SGU-CIPF
	RAPTOR: optimal protein threading by linear programming. [My Copy] J Bioinform Comput Biol, Vol. 1, No. 1. (April 2003), pp. 95-117. by J. Xu, M. Li, D. Kim, Y. Xu posted to no-tag by pjcite on 2009-05-29 13:01:44 as along with 2 people j3xucite dgront
	Boosting Protein Threading Accuracy [My Copy] Research in Computational Molecular Biology (2009), pp. 31-45. by Jian Peng, Jinbo Xu posted to no-tag by pjcite on 2009-05-29 12:59:50 as
	Can correct protein models be identified? [My Copy] Protein Sci, Vol. 12, No. 5. (May 2003), pp. 1073-1086. by B. Wallner, A. Elofsson posted to no-tag by pjcite on 2009-05-29 12:58:43 as along with 2 people and 2 groups marcius j3xucite BioinfoCIPF SGU-CIPF
	MetaMQAP: a meta-server for the quality assessment of protein models [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008) by Marcin Pawlowski, Michal Gajda, Ryszard Matlak, Janusz Bujnicki posted to no-tag by pjcite on 2009-05-29 12:57:31 as along with 1 person neils
	Identification of correct regions in protein models using structural, alignment, and consensus information. [My Copy] Protein science : a publication of the Protein Society, Vol. 15, No. 4. (April 2006), pp. 900-913. by B. Wallner, A. Elofsson posted to no-tag by pjcite on 2009-05-29 12:55:42 as
	Evaluating the absolute quality of a single protein model using structural features and support vector machines. [My Copy] Proteins (25 September 2008) by Zheng Wang, Allison N. N. Tegge, Jianlin Cheng posted to no-tag by pjcite on 2009-05-29 12:50:36 as along with 1 person j3xucite
	Structure-derived substitution matrices for alignment of distantly related sequences. [My Copy] Protein Eng, Vol. 13, No. 8. (August 2000), pp. 545-550. by A. Prlić, F. S. Domingues, M. J. Sippl posted to no-tag by pjcite on 2009-02-26 17:41:57 as along with 1 person dgront
	Statistical potential-based amino acid similarity matrices for aligning distantly related protein sequences [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 64, No. 3. (2006), pp. 587-600. by Yen H. Tan, He Huang, Daisuke Kihara posted to no-tag by pjcite on 2009-02-26 17:41:19 as along with 1 person j3xucite
	Gaussian process classification for segmenting and annotating sequences [My Copy] In ICML '04: Proceedings of the twenty-first international conference on Machine learning (2004) by Yasemin Altun, Thomas Hofmann, Alexander J. Smola posted to no-tag by pjcite on 2009-01-26 05:28:58 as along with 2 people liefengbo vlachmore
	A neural probabilistic language model [My Copy] J. Mach. Learn. Res., Vol. 3 (2003), pp. 1137-1155. by Yoshua Bengio, Réjean Ducharme, Pascal Vincent, Christian Janvin posted to no-tag by pjcite on 2009-01-26 05:18:13 as
	Evaluation and improvement of multiple sequence methods for protein secondary structure prediction [My Copy] Proteins: Structure, Function, and Genetics, Vol. 34, No. 4. (1999), pp. 508-519. by James A. Cuff, Geoffrey J. Barton posted to no-tag by pjcite on 2009-01-26 05:02:11 as
	Protein secondary structure prediction based on position-specific scoring matrices. [My Copy] Journal of molecular biology, Vol. 292, No. 2. (17 September 1999), pp. 195-202. by D. T. Jones posted to no-tag by pjcite on 2009-01-26 04:58:42 as along with 11 people rpetrenko kgutwin chad_davis wouterboomsma j3xucite dgront rabio rph dandaman saunders granujilla
	Comparisons of sequence labeling algorithms and extensions [My Copy] In ICML '07: Proceedings of the 24th international conference on Machine learning (2007), pp. 681-688. by Nam Nguyen, Yunsong Guo posted to no-tag by pjcite on 2009-01-26 04:53:14 as along with 1 person robert85
	Neural Networks for Pattern Recognition [My Copy] (18 January 1996) by Christopher M. Bishop posted to no-tag by pjcite on 2009-01-26 04:52:13 as along with 19 people and 5 groups ekatsyrk comqrnd tvdbulck meozbek napvasconcelos yaroslavvb eme leidner jekky buescher76 arielbaz filippone ephel Found poluxmoon brianmc aklassen olbudt fredguilloux CMU-HCII Blog_and_Wiki_Research automatic_summarization ASR astro
	A graphical model for protein secondary structure prediction [My Copy] In Proc. 21st Ann. Intl. Conf. on Machine Learning (ICML (2004), pp. 161-168. by Wei Chu, Zoubin Ghahramani, David posted to no-tag by pjcite on 2009-01-26 04:51:24 as
	A novel method of protein secondary structure prediction with high segment overlap measure: Support vector machine approach [My Copy] J. Mol. Biol, Vol. 308 (2001), pp. 397-407. by Sujun Hua, Zhirong Sun posted to no-tag by pjcite on 2009-01-26 04:50:42 as
	Protein secondary structure prediction based on an improved support vector machines approach. [My Copy] Protein engineering, Vol. 16, No. 8. (August 2003), pp. 553-560. by H. Kim, H. Park posted to no-tag by pjcite on 2009-01-26 04:50:29 as
	YASSPP: Better kernels and coding schemes lead to improvements in protein secondary structure prediction [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 64, No. 3. (2006), pp. 575-586. by George Karypis posted to no-tag by pjcite on 2009-01-26 04:49:32 as
	Achieving 80% ten-fold cross-validated accuracy for secondary structure prediction by large-scale training. [My Copy] Proteins, Vol. 66, No. 4. (1 March 2007), pp. 838-845. by O. Dor, Y. Zhou posted to no-tag by pjcite on 2009-01-26 04:49:15 as
	A practical Bayesian framework for backpropagation networks [My Copy] Neural Computation, Vol. 4 (1992), pp. 448-472. by David J. C. Mackay posted to no-tag by pjcite on 2009-01-26 04:47:10 as
	Support vector machine learning for interdependent and structured output spaces [My Copy] (2004), pp. 823-830. by Ioannis Tsochantaridis, Thomas Hofmann, Thorsten Joachims, Yasemin Altun posted to no-tag by pjcite on 2009-01-26 02:45:50 as
	Max-margin Markov networks [My Copy] (2003) by Ben Taskar, Carlos Guestrin, Daphne Koller posted to no-tag by pjcite on 2009-01-26 02:45:06 as
	Shallow parsing with conditional random fields [My Copy] (2003), pp. 213-220. by Fei Sha, O. Pereira posted to no-tag by pjcite on 2009-01-26 02:44:41 as
	Conditional random fields: Probabilistic models for segmenting and labeling sequence data [My Copy] (2001), pp. 282-289. by John Lafferty posted to no-tag by pjcite on 2009-01-26 02:44:29 as along with 1 person ianhales
	Kernel conditional random fields: representation and clique selection [My Copy] In in ICML (2004) by John Lafferty, Xiaojin Zhu, Yan Liu posted to crf by pjcite on 2009-01-26 02:42:27 as
	SCOP: a structural classification of proteins database for the investigation of sequences and structures. [My Copy] Journal of molecular biology, Vol. 247, No. 4. (7 April 1995), pp. 536-540. by A. G. Murzin, S. E. Brenner, T. Hubbard, C. Chothia posted to no-tag by pjcite on 2008-09-25 21:26:25 as along with 14 people timhubbard flbarroso yuslinaz semin dimka chrn chad_davis j3xucite sriram_s aengisch massivemayhem cjeans siebertm sim82
	Fold Recognition by Predicted Alignment Accuracy [My Copy] IEEE/ACM Trans. Comput. Biol. Bioinformatics, Vol. 2, No. 2. (April 2005), pp. 157-165. by Jinbo Xu posted to no-tag by pjcite on 2008-09-25 21:23:11 as along with 1 person j3xucite
	PROSPECT II: protein structure prediction program for genome-scale applications. [My Copy] Protein engineering, Vol. 16, No. 9. (September 2003), pp. 641-650. by D. Kim, D. Xu, J. T. Guo, K. Ellrott, Y. Xu posted to no-tag by pjcite on 2008-09-25 21:05:29 as
	Stratified Gradient Boosting for Fast Training of Conditional Random Fields ⋆ [My Copy] by Bernd Gutmann, Kristian Kersting posted to no-tag by pjcite on 2008-09-25 21:03:12 as
	Greedy function approximation: A gradient boosting machine [My Copy] Annals of Statistics, Vol. 29 (2001), pp. 1189-1232. by Jerome H. Friedman posted to no-tag by pjcite on 2008-09-25 21:00:48 as along with 2 people and 1 group alexeigor cyberwulf Statistical Machine Learning
	Prediction of coordination number and relative solvent accessibility in proteins [My Copy] Proteins: Structure, Function, and Genetics, Vol. 47, No. 2. (2002), pp. 142-153. by Gianluca Pollastri, Pierre Baldi, Pietro Fariselli, Rita Casadio posted to no-tag by pjcite on 2008-09-25 20:51:25 as
	Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features [My Copy] Biopolymers, Vol. 22, No. 12. (December 1983), pp. 2577-2637. by Wolfgang Kabsch, Christian Sander posted to no-tag by pjcite on 2008-09-25 20:49:25 as along with 33 people dfdong barmak7282 Vadikus j3xucite scampos TLVincent maria_hauser pablocarb rpetrenko carlosjavierna mijam wqia007 dsmueller niallhaslam saunders jwm sebk Diego_Prada kaarsinogen lna chad_davis wouterboomsma penka ffranca dgront choonpeng rabio gisle medic0747 martainn chgjb mschofie marti
	A machine learning information retrieval approach to protein fold recognition [My Copy] Bioinformatics, Vol. 22, No. 12. (15 June 2006), pp. 1456-1463. by Jianlin Cheng, Pierre Baldi posted to no-tag by pjcite on 2008-09-25 20:47:41 as along with 1 person and 1 group caporaso biomedical-nlp
	Identification of related proteins on family, superfamily and fold level. [My Copy] Journal of molecular biology, Vol. 295, No. 3. (21 January 2000), pp. 613-625. by E. Lindahl, A. Elofsson posted to no-tag by pjcite on 2008-09-25 20:46:29 as
	Protein structure alignment by incremental combinatorial extension (CE) of the optimal path. [My Copy] Protein Eng, Vol. 11, No. 9. (September 1998), pp. 739-747. by I. N. Shindyalov, P. E. Bourne posted to no-tag by pjcite on 2008-09-25 20:44:35 as along with 11 people and 2 groups medic0747 sebk reyez nigham jwm analogAI dgront rabio siebertm Inchoate sim82 Radiation_Damage Stressosome
	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 no-tag by pjcite on 2008-09-25 20:43:08 as along with 7 people maria_hauser operon newton1234 joseolucha mijam reyez granujilla
	Alignment of protein sequences by their profiles. [My Copy] Protein Sci, Vol. 13, No. 4. (April 2004), pp. 1071-1087. by M. A. Marti-Renom, M. S. Madhusudhan, A. Sali posted to no-tag by pjcite on 2008-09-25 20:40:01 as along with 3 people and 2 groups j3xucite marcius granujilla BioinfoCIPF SGU-CIPF

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