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	Model-Based Hierarchical Clustering [My Copy] In In Proc. 16th Conf. Uncertainty in Artificial Intelligence (2000), pp. 599-608. by Shivakumar Vaithyanathan, Byron Dom posted to algorithms clustering by carlk on 2009-06-10 20:32:28 as
	Color-coding [My Copy] J. ACM, Vol. 42, No. 4. (July 1995), pp. 844-856. by Noga Alon, Raphael Yuster, Uri Zwick posted to algorithms networks theory by carlk on 2009-03-12 21:38:07 as along with 1 person mellum
	An Analysis of Some Graph Theoretical Cluster Techniques [My Copy] J. ACM, Vol. 17, No. 4. (1970), pp. 571-588. by Gary J. Augustson, Jack Minker posted to algorithms clustering networks by carlk on 2009-01-29 19:24:13 as
	Portraits of Complex Networks [My Copy] (28 Feb 2008) by J. P. Bagrow, E. M. Bollt, J. D. Skufca, D. ben-Avraham posted to algorithms network networks visualization by carlk on 2009-01-21 16:44:51 as along with 2 people saket jaspervoskuilen
	Biological Networks: Comparison, Conservation, and Evolution via Relative Description Length [My Copy] Journal of Computational Biology, Vol. 14, No. 6. (2007), pp. 817-838. by Benny Chor, Tamir Tuller posted to algorithms distance networks by carlk on 2008-11-19 23:02:19 as along with 2 people saket jiny
	A Merge-Decoupling Dead End Elimination algorithm for protein side-chain conformation. [My Copy] International journal of data mining and bioinformatics, Vol. 1, No. 4. (2007), pp. 372-388. by K. F. Chong, H. W. Leong posted to algorithms protein scp structure by carlk on 2008-06-26 19:04:21 as
	Enhanced dead-end elimination in the search for the global minimum energy conformation of a collection of protein side chains. [My Copy] Protein engineering, Vol. 8, No. 8. (August 1995), pp. 815-822. by I. Lasters, M. De Maeyer, J. Desmet posted to algorithms protein scp structure by carlk on 2008-06-26 19:00:03 as along with 1 person dfgreen
	A graph-theoretic algorithm for comparative modeling of protein structure. [My Copy] Journal of molecular biology, Vol. 279, No. 1. (29 May 1998), pp. 287-302. by R. Samudrala, J. Moult posted to algorithms protein scp structure by carlk on 2008-06-26 18:59:24 as
	Critical assessment of side-chain conformational space sampling procedures designed for quantifying the effect of side-chain environment. [My Copy] Journal of computational chemistry, Vol. 24, No. 15. (30 November 2003), pp. 1950-1961. by R. Gautier, P. Tufféry posted to algorithms protein scp structure by carlk on 2008-06-26 18:59:10 as
	A new approach to the rapid determination of protein side chain conformations. [My Copy] J Biomol Struct Dyn, Vol. 8, No. 6. (June 1991), pp. 1267-1289. by P. Tuffery, C. Etchebest, S. Hazout, R. Lavery posted to algorithms historical protein scp structure by carlk on 2008-06-26 18:58:46 as along with 1 person dgront
	Dead-end based modeling tools to explore the sequence space that is compatible with a given scaffold. [My Copy] Journal of protein chemistry, Vol. 16, No. 5. (July 1997), pp. 449-452. by I. Lasters, J. Desmet, M. De Maeyer posted to algorithms energy protein scp structure by carlk on 2008-06-26 18:58:26 as
	Protein design automation. [My Copy] Protein Sci, Vol. 5, No. 5. (May 1996), pp. 895-903. by B. I. Dahiyat, S. L. Mayo posted to algorithms energy protein scp structure by carlk on 2008-06-26 18:57:55 as along with 4 people and 1 group dfgreen jwm shuns nknii TCR_Signaling
	Prediction and evaluation of side-chain conformations for protein backbone structures. [My Copy] Proteins, Vol. 26, No. 3. (November 1996), pp. 323-352. by P. S. Shenkin, H. Farid, J. S. Fetrow posted to algorithms historical protein scp structure by carlk on 2008-06-26 18:56:52 as
	Incorporating knowledge-based biases into an energy-based side-chain modeling method: application to comparative modeling of protein structure. [My Copy] Biopolymers, Vol. 59, No. 2. (August 2001), pp. 72-86. by J. Mendes, H. A. Nagarajaram, C. M. Soares, T. L. Blundell, M. A. Carrondo posted to algorithms protein scp structure by carlk on 2008-06-26 18:56:29 as along with 1 person medic0747
	Point matching under non-uniform distortions and protein side chain packing based on an efficient maximum clique algorithm. [My Copy] Genome informatics. International Conference on Genome Informatics, Vol. 13 (2002), pp. 143-152. by B. K. Dukka, T. Akutsu, E. Tomita, T. Seki, A. Fujiyama posted to algorithms protein scp structure by carlk on 2008-06-26 18:54:29 as
	Prediction of protein side-chain rotamers from a backbone-dependent rotamer library: a new homology modeling tool [My Copy] Journal of Molecular Biology, Vol. 267, No. 5. (18 April 1997), pp. 1268-1282. by M. Bower posted to algorithms protein scp structure by carlk on 2008-06-26 18:50:21 as along with 6 people and 1 group carlosjavierna kaarsinogen nknii blackbart mijam jwm TCR_Signaling
	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 algorithms protein scp structure by carlk on 2008-06-26 18:50:04 as along with 11 people oceanwind mcbla karbak nigham bicko blackbart bluvsh1 rsantana mijam jwm newton1234
	A tree-decomposition approach to protein structure prediction. [My Copy] Proc IEEE Comput Syst Bioinform Conf (2005), pp. 247-256. by J. Xu, F. Jiao, B. Berger posted to algorithms protein scp structure by carlk on 2008-06-26 18:49:50 as along with 1 person j3xucite
	Improved Pruning algorithms and Divide-and-Conquer strategies for Dead-End Elimination, with application to protein design. [My Copy] Bioinformatics (Oxford, England), Vol. 22, No. 14. (15 July 2006) by I. Georgiev, R. H. Lilien, B. R. Donald posted to algorithms protein scp structure by carlk on 2008-06-26 18:29:07 as along with 1 person dfgreen
	Protein side-chain packing problem: a maximum edge-weight clique algorithmic approach. [My Copy] Journal of bioinformatics and computational biology, Vol. 3, No. 1. (February 2005), pp. 103-126. by K. C. Dukka Bahadur, E. Tomita, J. Suzuki, T. Akutsu posted to algorithms protein scp structure by carlk on 2008-06-26 18:27:44 as
	Residue-rotamer-reduction algorithm for the protein side-chain conformation problem [My Copy] Bioinformatics, Vol. 22, No. 2. (15 January 2006), pp. 188-194. by Wei Xie, Nikolaos V. Sahinidis posted to algorithms protein scp structure by carlk on 2008-06-26 18:26:40 as along with 4 people and 2 groups dfgreen bicko marcius bluvsh1 BioinfoCIPF SGU-CIPF
	Exploring conformational space using a mean field technique with MOLS sampling. [My Copy] Journal of biosciences, Vol. 32, No. 5. (August 2007), pp. 909-920. by P. A. Prasad, V. Kanagasabai, J. Arunachalam, N. Gautham posted to algorithms energy protein scp structure by carlk on 2008-06-26 18:25:42 as
	IRECS: a new algorithm for the selection of most probable ensembles of side-chain conformations in protein models. [My Copy] Protein science : a publication of the Protein Society, Vol. 16, No. 7. (July 2007), pp. 1294-1307. by C. Hartmann, I. Antes, T. Lengauer posted to algorithms protein scp search structure by carlk on 2008-06-26 18:24:57 as
	Efficient rotamer elimination applied to protein side-chains and related spin glasses. [My Copy] Biophys J, Vol. 66, No. 5. (May 1994), pp. 1335-1340. by R. F. Goldstein posted to algorithms protein scp structure by carlk on 2008-06-26 18:22:22 as along with 6 people dfgreen dgront bluvsh1 kazemi rsantana mijam
	The fuzzy-end elimination theorem: correctly implementing the side chain placement algorithm based on the dead-end elimination theorem. [My Copy] Protein engineering, Vol. 6, No. 7. (September 1993), pp. 717-722. by I. Lasters, J. Desmet posted to algorithms scp structure by carlk on 2008-06-26 16:38:58 as along with 1 person dfgreen
	Modelling protein side-chain conformations using constraint logic programming. [My Copy] Comput Chem, Vol. 26, No. 1. (December 2001), pp. 85-95. by M. T. Swain, G. J. Kemp posted to algorithms scp structure by carlk on 2008-06-26 16:35:24 as along with 1 person karbak
	Improved side-chain prediction accuracy using an ab initio potential energy function and a very large rotamer library. [My Copy] Protein Sci, Vol. 13, No. 3. (March 2004), pp. 735-751. by R. W. Peterson, P. L. Dutton, A. J. Wand posted to algorithms scp structure by carlk on 2008-06-26 16:34:51 as along with 2 people karbak blackbart
	An adaptive dynamic programming algorithm for the side chain placement problem. [My Copy] Pac Symp Biocomput (2005), pp. 16-27. by A. Leaver-Fay, B. Kuhlman, J. Snoeyink posted to algorithms scp structure by carlk on 2008-06-26 16:31:49 as along with 2 people apaydin bluvsh1
	Comparing clusterings—an information based distance [My Copy] Journal of Multivariate Analysis, Vol. 98, No. 5. (May 2007), pp. 873-895. by M. Meila posted to algorithms modules networks by carlk on 2008-06-16 20:31:53 as along with 8 people lptolik rumig zchen singhsh sterovetta saket amac vlachmore
	Semantic integration to identify overlapping functional modules in protein interaction networks [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (24 July 2007), 265. by Young R. Cho, Woochang Hwang, Murali Ramanathan, Aidong Zhang posted to algorithms functionprediction networks by carlk on 2008-06-15 19:47:47 as along with 4 people guhjy tmmurali grahamc AbnerCYH
	Topological structure analysis of the protein-protein interaction network in budding yeast [My Copy] Nucl. Acids Res., Vol. 31, No. 9. (1 May 2003), pp. 2443-2450. by Dongbo Bu, Yi Zhao, Lun Cai, et al.Hong Xue, Xiaopeng Zhu, Hongchao Lu, Jingfen Zhang, Shiwei Sun, Lunjiang Ling, Nan Zhang, Guojie Li, Runsheng Chen posted to algorithms functionprediction moduledetection modules tmpcite1 yeast by carlk on 2008-06-15 18:48:28 as along with 6 people and 1 group jmenche lfriedl cjeans iris_2001 minostro ellakat kdl
	Defining and identifying communities in networks [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 101, No. 9. (2 March 2004), pp. 2658-2663. by Filippo Radicchi, Claudio Castellano, Federico Cecconi, Vittorio Loreto, Domenico Parisi posted to algorithms moduledetection modules networks by carlk on 2008-06-14 19:05:50 as along with 19 people and 2 groups akavipat mussi almadana christiand vtraag kremso kubyaddi fabianavernero haewoon castellano shivaram jfr yas merazzle gcalda ltabourier sparikh tnhh Diego_Prada smc-infm T_lab
	Random Forests [My Copy] Machine Learning, Vol. 45, No. 1. (1 October 2001), pp. 5-32. by Leo Breiman posted to algorithms by carlk on 2008-06-12 21:16:41 as along with 23 people and 1 group zhengyun ucbcjbm sona srp33 felixandrews Borelli ipark-kaist alexeigor dekrays mdifranc wicker alinatunin kliger polykrates abrentnall kaarsinogen sdvillal maheshj lp2 poluxmoon jdu AbnerCYH yaroslavvb Random Subspace Method
	Support-vector networks [My Copy] Machine Learning, Vol. 20, No. 3. (1 September 1995), pp. 273-297. by Corinna Cortes, Vladimir Vapnik posted to algorithms by carlk on 2008-06-12 21:15:15 as along with 7 people badi moonykily espriggs thefillm apostola lp2 jhs4jeb
	Global protein function prediction from protein-protein interaction networks. [My Copy] Nat Biotechnol, Vol. 21, No. 6. (June 2003), pp. 697-700. by A. Vazquez, A. Flammini, A. Maritan, A. Vespignani posted to algorithms functionprediction networks by carlk on 2008-06-12 14:40:44 as along with 10 people chica davidecellai aprildh31 jiny shivaram eweaver gcalda grahamc iris_2001 maralena
	$My PDF c&\#259;linescu_98_improved.pdf$ An improved approximation algorithm for multiway cut [My Copy] In STOC '98: Proceedings of the thirtieth annual ACM symposium on Theory of computing (1998), pp. 48-52. by Gruia C&\#259;linescu, Howard Karloff, Yuval Rabani posted to algorithms networks by carlk on 2008-06-12 14:38:14 as along with 1 person and 4 groups euclid Algorithms metric_embeddings TCS Polytopes
	Approximation algorithms for labeling hierarchical taxonomies [My Copy] In SODA '08: Proceedings of the nineteenth annual ACM-SIAM symposium on Discrete algorithms (2008), pp. 671-680. by Yuval Rabani, Leonard J. Schulman, Chaitanya Swamy posted to algorithms go ontology by carlk on 2008-06-12 14:37:44 as
	Discovering topological motifs using a compact notation. [My Copy] Journal of computational biology : a journal of computational molecular cell biology, Vol. 14, No. 3. (April 2007), pp. 300-323. by L. Parida posted to algorithms motifs networks by carlk on 2008-06-11 06:14:31 as
	Graph Theory and Networks in Biology [My Copy] (6 Apr 2006) by Oliver Mason, Mark Verwoerd posted to algorithms networks review by carlk on 2008-06-05 19:34:50 as along with 13 people diamantis saket imouthesmp BarrosH onyx lshaw karfunkel ptpases Borelli ilkert ansobol mjoach dpf
	The small-world phenomenon: an algorithm perspective [My Copy] In STOC '00: Proceedings of the thirty-second annual ACM symposium on Theory of computing (2000), pp. 163-170. by Jon Kleinberg posted to algorithms networks by carlk on 2008-06-05 19:34:03 as along with 11 people and 1 group jabl matteodellamico AbnerCYH muraken jaspervoskuilen emersonmello ransombriggs dstrelau gvdh saket chibatching GCSeg
	Computing Communities in Large Networks Using Random Walks [My Copy] Computer and Information Sciences - ISCIS 2005 (2005), pp. 284-293. by Pascal Pons, Matthieu Latapy posted to algorithms modules networks by carlk on 2008-06-01 03:33:10 as along with 1 person studentx
	A new planarity test [My Copy] Theoretical Computer Science, Vol. 223, No. 1--2. (1999), pp. 179-191. by Wei K. Shih, Wen L. Hsu posted to algorithms networks steiner by carlk on 2008-05-31 21:50:00 as
	Whole-genome annotation by using evidence integration in functional-linkage networks. [My Copy] Proc Natl Acad Sci U S A, Vol. 101, No. 9. (2 March 2004), pp. 2888-2893. by U. Karaoz, T. M. Murali, S. Letovsky, et al.Y. Zheng, C. Ding, C. R. Cantor, S. Kasif posted to algorithms functionprediction by carlk on 2008-05-23 18:29:08 as along with 4 people and 1 group jiny shivaram lfriedl nedwards kdl
	Conserved pathways within bacteria and yeast as revealed by global protein network alignment [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 100, No. 20. (30 September 2003), pp. 11394-11399. by Brian P. Kelley, Roded Sharan, Richard M. Karp, et al.Taylor Sittler, David E. Root, Brent R. Stockwell, Trey Ideker posted to algorithms alignment networks by carlk on 2008-05-23 18:27:44 as along with 10 people and 1 group chica emmackinnon okarsligil balajis nuke2005 gurkanbebek mirzazadeh denilw shu mdstobbe Bioinformatics
	Reconstructing the Topology of Protein Complexes [My Copy] Research in Computational Molecular Biology (2007), pp. 32-46. by Allister Bernard, David Vaughn, Alexander Hartemink posted to algorithms complex networks by carlk on 2008-05-23 18:26:47 as
	QNet: A Tool for Querying Protein Interaction Networks [My Copy] Research in Computational Molecular Biology (2007), pp. 1-15. by Banu Dost, Tomer Shlomi, Nitin Gupta, Eytan Ruppin, Vineet Bafna, Roded Sharan posted to algorithms networks search by carlk on 2008-05-23 18:25:35 as
	Pairwise Global Alignment of Protein Interaction Networks by Matching Neighborhood Topology [My Copy] Research in Computational Molecular Biology (2007), pp. 16-31. by Rohit Singh, Jinbo Xu, Bonnie Berger posted to algorithms alignment networks protein by carlk on 2008-05-23 18:25:13 as along with 1 person AbnerCYH
	Network Motif Discovery Using Subgraph Enumeration and Symmetry-Breaking [My Copy] Research in Computational Molecular Biology (2007), pp. 92-106. by Joshua Grochow, Manolis Kellis posted to algorithms networks search by carlk on 2008-05-23 18:23:39 as along with 4 people nurban saket mjoach tmmurali

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carlk's algorithms [48 articles] Export Sort

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