-
1
-
-
10844227450
-
Bioinformatics and management science: Some common tools and techniques
-
Abbas A., and Holmes S. Bioinformatics and management science: Some common tools and techniques. Operations Research 52 (2004) 165-190
-
(2004)
Operations Research
, vol.52
, pp. 165-190
-
-
Abbas, A.1
Holmes, S.2
-
2
-
-
0037565721
-
On maximum clique problems in very large graphs
-
Abello J., and Vitter J.S. (Eds), American Mathematical Society, Providence, RI
-
Abello J., Pardalos P.M., and Resende M.G.C. On maximum clique problems in very large graphs. In: Abello J., and Vitter J.S. (Eds). External Memory Algorithms, DIMACS Series in Discrete Mathematics and Theoretical Computer Science vol. 50 (1999), American Mathematical Society, Providence, RI 119-130
-
(1999)
External Memory Algorithms, DIMACS Series in Discrete Mathematics and Theoretical Computer Science
, vol.50
, pp. 119-130
-
-
Abello, J.1
Pardalos, P.M.2
Resende, M.G.C.3
-
3
-
-
1542537790
-
-
Abu-Khzam, F., Langston, M., Shanbhag, P., November 2003. Scalable parallel algorithms for difficult combinatorial problems: A case study in optimization. In: International Conference on Parallel and Distributed Computing and Systems. Los Angeles, CA, pp. 563-568.
-
-
-
-
4
-
-
84968014854
-
-
Arora, S., Safra, S., 1992. Approximating clique is NP-complete. In: Proceedings of the 33rd IEEE Symposium on Foundations of Computer Science. Piscataway, NJ, pp. 2-13.
-
-
-
-
5
-
-
0026328675
-
Genomic mapping by anchoring random clones: A mathematical analysis
-
Arratia R., Lander E., Tavare S., and Waterman M. Genomic mapping by anchoring random clones: A mathematical analysis. Genomics 11 (1991) 806-827
-
(1991)
Genomics
, vol.11
, pp. 806-827
-
-
Arratia, R.1
Lander, E.2
Tavare, S.3
Waterman, M.4
-
7
-
-
0025904136
-
Finding maximum cliques in arbitrary and special graphs
-
Babel L. Finding maximum cliques in arbitrary and special graphs. Computing 46 (1991) 321
-
(1991)
Computing
, vol.46
, pp. 321
-
-
Babel, L.1
-
8
-
-
0038521875
-
Nonoverlapping local alignments (weighted independent sets of axis-parallel rectangles)
-
Bafna V., Narayanan B., and Ravi R. Nonoverlapping local alignments (weighted independent sets of axis-parallel rectangles). Discrete Applied Mathematics 71 (1996) 41-53
-
(1996)
Discrete Applied Mathematics
, vol.71
, pp. 41-53
-
-
Bafna, V.1
Narayanan, B.2
Ravi, R.3
-
9
-
-
0642312971
-
Point matching under non-uniform distortions and protein side chain packing based on an efficient maximum clique algorithm
-
Bahadur D., Akutsu T., Tomita E., Seki T., and Fujiyama A. Point matching under non-uniform distortions and protein side chain packing based on an efficient maximum clique algorithm. Genome Informatics 13 (2002) 143-152
-
(2002)
Genome Informatics
, vol.13
, pp. 143-152
-
-
Bahadur, D.1
Akutsu, T.2
Tomita, E.3
Seki, T.4
Fujiyama, A.5
-
10
-
-
0022808049
-
Finding a maximum clique in an arbitrary graph
-
Balas E., and Yu C. Finding a maximum clique in an arbitrary graph. SIAM Journal of Computing 15 (1986) 1054-1068
-
(1986)
SIAM Journal of Computing
, vol.15
, pp. 1054-1068
-
-
Balas, E.1
Yu, C.2
-
11
-
-
33748704336
-
-
Baldwin, N.E., Collins, R.L., Langston, M.A., Leuze, M.R., Symons, C.T., Voy, B.H., 2004. High performance computational tools for motif discovery. In: IEEE International Workshop on High Performance Computational Biology.
-
-
-
-
14
-
-
9944263088
-
On structural properties of the market graph
-
Nagurney A. (Ed), Edward Elgar Publishers, London
-
Boginski V., Butenko S., and Pardalos P.M. On structural properties of the market graph. In: Nagurney A. (Ed). Innovation in Financial and Economic Networks (2003), Edward Elgar Publishers, London 29-45
-
(2003)
Innovation in Financial and Economic Networks
, pp. 29-45
-
-
Boginski, V.1
Butenko, S.2
Pardalos, P.M.3
-
15
-
-
0002590155
-
The maximum clique problem
-
Du D.-Z., and Pardalos P.M. (Eds), Kluwer Academic Publishers, Dordrecht, The Netherlands
-
Bomze I.M., Budinich M., Pardalos P.M., and Pelillo M. The maximum clique problem. In: Du D.-Z., and Pardalos P.M. (Eds). Handbook of Combinatorial Optimization (1999), Kluwer Academic Publishers, Dordrecht, The Netherlands 1-74
-
(1999)
Handbook of Combinatorial Optimization
, pp. 1-74
-
-
Bomze, I.M.1
Budinich, M.2
Pardalos, P.M.3
Pelillo, M.4
-
17
-
-
0023456962
-
Algorithms for the identification of three-dimensional maximal common substructures
-
Brint A., and Willett P. Algorithms for the identification of three-dimensional maximal common substructures. Journal of Chemical Information and Computer Science 27 (1987) 152-158
-
(1987)
Journal of Chemical Information and Computer Science
, vol.27
, pp. 152-158
-
-
Brint, A.1
Willett, P.2
-
18
-
-
84976668743
-
Algorithm 457: Finding all cliques on an undirected graph
-
Bron C., and Kerbosch J. Algorithm 457: Finding all cliques on an undirected graph. Communications of ACM 16 (1973) 575-577
-
(1973)
Communications of ACM
, vol.16
, pp. 575-577
-
-
Bron, C.1
Kerbosch, J.2
-
19
-
-
33748678166
-
-
Butenko, S., Pardalos, P.M., Sergienko, I.V., Shylo, V., Stetsyuk, P., in press. Estimating the size of correcting codes using extremal graph problems. In: Pearce, C. (Ed.), Optimization: Structure and Applications. Kluwer Academic Publishers, Dordrecht, The Netherlands, in press.
-
-
-
-
20
-
-
33748685080
-
-
Carr, R., Lancia, G., Istrail, S., 2000. Branch-and-cut algorithms for independent set problems: Integrality gap and an application to protein structure alignment. Tech. Rep. SAND2000-2171, Sandia National Laboratories, Albuquerque, NM.
-
-
-
-
21
-
-
0025521978
-
An exact algorithm for the maximum clique problem
-
Carraghan R., and Pardalos P. An exact algorithm for the maximum clique problem. Operations Research Letters 9 (1990) 375-382
-
(1990)
Operations Research Letters
, vol.9
, pp. 375-382
-
-
Carraghan, R.1
Pardalos, P.2
-
30
-
-
84988128979
-
Geometrically feasible binding modes of a flexible ligand molecule at the receptor-site
-
Ghose A.K., and Crippen G.M. Geometrically feasible binding modes of a flexible ligand molecule at the receptor-site. Journal of Computational Chemistry 6 (1985) 350-359
-
(1985)
Journal of Computational Chemistry
, vol.6
, pp. 350-359
-
-
Ghose, A.K.1
Crippen, G.M.2
-
31
-
-
0026726481
-
A topology fingerprint approach to inverse protein folding problem
-
Godzik A., Sklonick J., and Kolinski A. A topology fingerprint approach to inverse protein folding problem. Journal of Molecular Biology 227 (1992) 227-238
-
(1992)
Journal of Molecular Biology
, vol.227
, pp. 227-238
-
-
Godzik, A.1
Sklonick, J.2
Kolinski, A.3
-
32
-
-
0033309959
-
-
Goldman, D., Istrail, S., Papadimitriou, C., 1999. Algorithmic aspects of protein structure similarity. In: Proceedings of the 40th IEEE Symposium on Foundations of Computer Science. pp. 512-522.
-
-
-
-
34
-
-
4544326903
-
Opportunities for combinatorial optimization in computational biology
-
Greenberg H.J., Hart W.E., and Lancia G. Opportunities for combinatorial optimization in computational biology. INFORMS Journal on Computing 16 (2004) 211-231
-
(2004)
INFORMS Journal on Computing
, vol.16
, pp. 211-231
-
-
Greenberg, H.J.1
Hart, W.E.2
Lancia, G.3
-
35
-
-
0027511808
-
Identification of tertiary structure resemblance in proteins using a maximal common sub-graph isomorphism algorithm
-
Grindley H., Artymiuk P., Rice D., and Willett P. Identification of tertiary structure resemblance in proteins using a maximal common sub-graph isomorphism algorithm. Journal of Molecular Biology 229 (1993) 707-721
-
(1993)
Journal of Molecular Biology
, vol.229
, pp. 707-721
-
-
Grindley, H.1
Artymiuk, P.2
Rice, D.3
Willett, P.4
-
37
-
-
0032937711
-
Revealing hidden interval graph structure in STS-content data
-
Harley E., Bonner A., and Goodman N. Revealing hidden interval graph structure in STS-content data. Bioinformatics 15 (1999) 278-285
-
(1999)
Bioinformatics
, vol.15
, pp. 278-285
-
-
Harley, E.1
Bonner, A.2
Goodman, N.3
-
38
-
-
0034958818
-
Uniform integration of genome mapping data using intersection graphs
-
Harley E., Bonner A., and Goodman N. Uniform integration of genome mapping data using intersection graphs. Bioinformatics 17 (2001) 487-494
-
(2001)
Bioinformatics
, vol.17
, pp. 487-494
-
-
Harley, E.1
Bonner, A.2
Goodman, N.3
-
39
-
-
0037375005
-
Approximate protein folding in the HP side chain model on extended cubic lattices
-
Heun V. Approximate protein folding in the HP side chain model on extended cubic lattices. Discrete Applied Mathematics 127 (2003) 163-177
-
(2003)
Discrete Applied Mathematics
, vol.127
, pp. 163-177
-
-
Heun, V.1
-
40
-
-
0031419681
-
Using a genetic algorithm to identify common structural features in sets of ligands
-
Holliday J., and Willett P. Using a genetic algorithm to identify common structural features in sets of ligands. Journal of Molecular Graphics and Modelling 15 (1997) 221-232
-
(1997)
Journal of Molecular Graphics and Modelling
, vol.15
, pp. 221-232
-
-
Holliday, J.1
Willett, P.2
-
41
-
-
33748699642
-
-
Johnson D.S., and Trick M.A. (Eds), American Mathematical Society, Providence, RI
-
In: Johnson D.S., and Trick M.A. (Eds). Cliques, Coloring, and Satisfiability: Second DIMACS Implementation Challenge, DIMACS Series vol. 26 (1996), American Mathematical Society, Providence, RI
-
(1996)
Cliques, Coloring, and Satisfiability: Second DIMACS Implementation Challenge, DIMACS Series
, vol.26
-
-
-
42
-
-
0031461057
-
SS3D-P2: A three dimensional substructure search program for protein motifs based on secondary structure elements
-
Kato H., and Takahashi Y. SS3D-P2: A three dimensional substructure search program for protein motifs based on secondary structure elements. Computer Applications in the Biosciences 13 (1997) 593-600
-
(1997)
Computer Applications in the Biosciences
, vol.13
, pp. 593-600
-
-
Kato, H.1
Takahashi, Y.2
-
43
-
-
2642511416
-
Probabilistic description of protein alignments for sequences and structures
-
Koike R., Kinoshita K., and Kidera A. Probabilistic description of protein alignments for sequences and structures. Proteins: Structure, Function, and Bioinformatics 56 (2004) 157-166
-
(2004)
Proteins: Structure, Function, and Bioinformatics
, vol.56
, pp. 157-166
-
-
Koike, R.1
Kinoshita, K.2
Kidera, A.3
-
45
-
-
84943255398
-
-
Lancia, G., Bafna, V., Istrail, S., Lippert, R., Schwartz, R., 2001. Snps problems, complexity, and algorithms. In: ESA 2001. pp. 182-193.
-
-
-
-
46
-
-
33748708900
-
-
Langston, M., Lin, L., Peng, X., Baldwin, N., Symons, C., Zhang, B., Snoddy, J., 2004. A combinatorial approach to the analysis of differential gene expression data. Tech. Rep. 04-514, Department of Computer Science, University of Tennessee, Knoxville, TN.
-
-
-
-
47
-
-
0027548454
-
A fast new approach to pharmacophore mapping and its application to dopaminergic and benzodiazepine agonists
-
Martin Y., Bures M., Danaher E., DeLazzer J., Lico I., and Pavlik P.A. A fast new approach to pharmacophore mapping and its application to dopaminergic and benzodiazepine agonists. Journal of Computer-Aided Molecular Design 7 (1993) 83
-
(1993)
Journal of Computer-Aided Molecular Design
, vol.7
, pp. 83
-
-
Martin, Y.1
Bures, M.2
Danaher, E.3
DeLazzer, J.4
Lico, I.5
Pavlik, P.A.6
-
50
-
-
0014757386
-
A general method applicable to the search for similarities in the amino acid sequence of two proteins
-
Needleman S.B., and Wunsch C.D. A general method applicable to the search for similarities in the amino acid sequence of two proteins. Journal of Molecular Biology 48 (1970) 443-453
-
(1970)
Journal of Molecular Biology
, vol.48
, pp. 443-453
-
-
Needleman, S.B.1
Wunsch, C.D.2
-
52
-
-
0034565285
-
-
Pevzner, Sze, S.-H., 2000. Combinatorial approaches to finding subtle signals in dna sequences. In: Proceedings of 8th International Conference on Intelligent Systems for Molecular Biology. pp. 269-278.
-
-
-
-
53
-
-
0037365122
-
CLIP: Similarity searching of 3D databases using clique detection
-
Rhodes N., Willett P., Calvert A., Dunbar J., and Humblet C. CLIP: Similarity searching of 3D databases using clique detection. Journal of Chemical Information and Computer Science 43 (2003) 338-443
-
(2003)
Journal of Chemical Information and Computer Science
, vol.43
, pp. 338-443
-
-
Rhodes, N.1
Willett, P.2
Calvert, A.3
Dunbar, J.4
Humblet, C.5
-
54
-
-
0032577270
-
A graph-theoretic algorithm for comparative modeling of protein structure
-
Samudrala R., and Moult J. A graph-theoretic algorithm for comparative modeling of protein structure. Journal of Molecular Biology 279 (1988) 287-302
-
(1988)
Journal of Molecular Biology
, vol.279
, pp. 287-302
-
-
Samudrala, R.1
Moult, J.2
-
55
-
-
0031308498
-
Handling context-sensitivity in protein structures using graph theory: Bona fide prediction
-
Samudrala R., and Moult J. Handling context-sensitivity in protein structures using graph theory: Bona fide prediction. Proteins: Structure, Function, and Genetics Suppl. 1 (1997) 43-49
-
(1997)
Proteins: Structure, Function, and Genetics
, Issue.SUPPL. 1
, pp. 43-49
-
-
Samudrala, R.1
Moult, J.2
-
56
-
-
0028685328
-
GeneQuiz: A workbench for sequence analysis
-
Altmann R., Brutlag D., Karp P., Lathrop R., and Searls D. (Eds), AAAIPress, Menlo Park, CA
-
Scharf M., Schneider R., Casari G., Bork P., Valencia A., Ouzounis C., and Sander C. GeneQuiz: A workbench for sequence analysis. In: Altmann R., Brutlag D., Karp P., Lathrop R., and Searls D. (Eds). Proceedings of the Second International Conference on Intelligent Systems in Molecular Biology (1994), AAAIPress, Menlo Park, CA 348-353
-
(1994)
Proceedings of the Second International Conference on Intelligent Systems in Molecular Biology
, pp. 348-353
-
-
Scharf, M.1
Schneider, R.2
Casari, G.3
Bork, P.4
Valencia, A.5
Ouzounis, C.6
Sander, C.7
-
57
-
-
0029960050
-
The HSSP database of protein structure-sequence alignments
-
Schneider R., and Sander C. The HSSP database of protein structure-sequence alignments. Nucleic Acids Research 24 (1996) 201-205
-
(1996)
Nucleic Acids Research
, vol.24
, pp. 201-205
-
-
Schneider, R.1
Sander, C.2
-
58
-
-
0025210828
-
Simple algorithm for finding a maximum clique and its worst-case time complexity
-
Shindo M., and Tomita E. Simple algorithm for finding a maximum clique and its worst-case time complexity. Systems Computer 21 (1990) 1
-
(1990)
Systems Computer
, vol.21
, pp. 1
-
-
Shindo, M.1
Tomita, E.2
-
60
-
-
0000525368
-
Automated recognition of common geometrical patterns among a variety of three-dimensional molecular structures
-
Takahashi Y., Maeda S., and Sasaki S.-I. Automated recognition of common geometrical patterns among a variety of three-dimensional molecular structures. Analytica Chimica Acta 200 (1987) 363-377
-
(1987)
Analytica Chimica Acta
, vol.200
, pp. 363-377
-
-
Takahashi, Y.1
Maeda, S.2
Sasaki, S.-I.3
-
61
-
-
33749048664
-
Genetic implications of the structure of deoxyribonucleic acid
-
Watson J., and Crick F. Genetic implications of the structure of deoxyribonucleic acid. Nature 171 (1953) 964-967
-
(1953)
Nature
, vol.171
, pp. 964-967
-
-
Watson, J.1
Crick, F.2
|