Machine learning in bioinformatics

Cites (285)

Items 201–285 of 285

1. Inference of gene regulatory networks using s-system and differential evolution
   Nasimul Noman, Hitoshi Iba · 2005 · Genetic and Evolutionary Computation Conference (GECCO)
2. Near-Optimal Designs for Dual Channel Microarray Studies
   Ernst C. Wit, Agostino Nobile, Raya Khanin · 2005 · Journal of the Royal Statistical Society Series C (Applied Statistics)
3. Deriving quantitative conclusions from microarray expression data
   Adam B. Olshen, Ajay N. Jain · 2002 · Bioinformatics
4. Reverse engineering of genetic networks with Bayesian networks
   Dirk Husmeier · 2003 · Biochemical Society Transactions
5. Fast feature selection using a simple estimation of distribution algorithm: a case study on splice site prediction
   Yvan Saeys, Sven Degroeve, Dirk Aeyels · 2003 · Bioinformatics
6. Decision tree-based formation of consensus protein secondary structure prediction
   Joachim Selbig, Theo Mevissen, Thomas Lengauer · 1999 · Bioinformatics
7. Multiple sequence alignment by parallel simulated annealing
   Masato Ishikawa, Tomoyuki Toya, Masaki Hoshida · 1993 · Computer applications in the biosciences
8. Primer design using genetic algorithm
   Jain-Shing Wu, Chung‐Nan Lee, Chien-Chang Wu · 2004 · Bioinformatics
9. A Bayesian framework for combining gene predictions
   Vladimir Pavlović, Ashutosh Garg, Simon Kasif · 2002 · Bioinformatics
10. Discovery of RNA structural elements using evolutionary computation
    Gary B. Fogel · 2002 · Nucleic Acids Research
11. Modularized learning of genetic interaction networks from biological annotations and mRNA expression data
    P. H. Lee, Doheon Lee · 2005 · Computer applications in the biosciences
12. A fuzzy guided genetic algorithm for operon prediction
    Elizabeth Jacob, Rathinasabapathy Sasikumar, K. N. Ramachandran Nair · 2004 · Computer applications in the biosciences
13. Variance-stabilizing transformations for two-color microarrays
    Blythe Durbin, David M. Rocke · 2004 · Bioinformatics
14. Applying Machine Learning Techniques to Analysis of Gene Expression Data: Cancer Diagnosis
    Kyu‐Baek Hwang, Dong-Yeon Cho, Sang-Wook Park · 2002 · Springer eBooks
15. Training HMM structure with genetic algorithm for biological sequence analysis
    Kyoung‐Jae Won, Adam Prügel‐Bennett, Anders Krogh · 2004 · Bioinformatics
16. Application of genetic algorithms to parameter estimation of bioprocesses
    Lac-Jeong Park, C. H. Park, Chankyu Park · 1997 · Medical & Biological Engineering & Computing
17. Superior feature-set ranking for small samples using bolstered error estimation
    Chao Sima A, Ulisses Braga-Neto, Edward R. Dougherty · 2004 · Bioinformatics
18. Data Mining for Bioinformatics
    Alan Wee‐Chung Liew, Hong Yan, Mengsu Yang · 2005 · Springer eBooks
19. Prediction of colon cancer using an evolutionary neural network
    Kyung-Joong Kim, Sung‐Bae Cho · 2004 · Neurocomputing
20. Splice site identification by idlBNs
    Robert Castelo, Roderic Guigó · 2004 · Bioinformatics
21. Functional bioinformatics of microarray data: from expression to regulation
    Yves Moreau, Frank De Smet, Gert Thijs, Kathleen Marchal D, Bart De Moor · 2002 · Proceedings of the IEEE
22. High density linkage disequilibrium mapping using models of haplotype block variation
    Gideon Greenspan, Dan Geiger · 2004 · Bioinformatics
23. A simulated annealing algorithm for finding consensus sequences
    Jonathan Macgregor Keith, Peter D. Adams, Darryn E. Bryant · 2002 · Bioinformatics
24. The Dead-End Elimination Theorem: Mathematical Aspects, Implementation, Optimizations, Evaluation and Performance
    Marc De Maeyer, Johan Desmet, Ignace Lasters · 2003 · Humana Press eBooks
25. A genetic algorithm for the detection of new cis-regulatory modules in sets of coregulated genes
    Stein Aerts, Peter Van Loo, Yves Moreau · 2004 · Bioinformatics
26. Protein β-turn prediction using nearest-neighbor method
    Saejoon Kim · 2003 · Bioinformatics
27. A stochastic algorithm for global optimization and for best populations: A test case of side chains in proteins
    Meir Glick, Anwar Rayan, Amiram Goldblum · 2002 · Proceedings of the National Academy of Sciences
28. Interactive analysis of gene interactions using Graphical Gaussian Model
    Xintao Wu, Yong Ye, Kalpathi R. Subramanian · 2003
29. A Bayesian network model for protein fold and remote homologue recognition
    Alpan Raval, Zoubin Ghahramani, DL Wild · 2002 · Bioinformatics
30. Fast multiple alignment of ungapped DNA sequences using information theory and a relaxation method
    Thomas Dana Schneider, David N. Mastronarde · 1996 · Discrete Applied Mathematics
31. Joint Classifier and Feature Optimization for Comprehensive Cancer Diagnosis Using Gene Expression Data
    Balaji Krishnapuram, Lawrence Carin, Alexander J. Hartemink · 2004 · Journal of Computational Biology
32. DNA Microarray Data Analysis
    Tsz Chung Au · 2003
33. Bioinformatics: Sequence, Structure and Databanks
    2002 · Biotech Software & Internet Report
34. Gapped alignment of protein sequence motifs through Monte Carlo optimization of a hidden Markov model
    Andrew F. Neuwald, Jun S. Liu · 2004 · BMC Bioinformatics
35. A GRASP/VND heuristic for the phylogeny problem using a new neighborhood structure
    Celso Carneiro Ribeiro, Dalessandro Soares Vianna · 2005 · International Transactions in Operational Research
36. Genetic algorithm for feature selection for parallel classifiers
    Ludmila Ilieva Kuncheva · 1993 · Information Processing Letters
37. The Co-Evolution of Memetic Algorithms for Protein Structure Prediction
    James Edward Smith · 2006 · Springer eBooks
38. Efficient approximations for learning phylogenetic HMM models from data
    Vladimir Jojic, Nebojša Jojić, Christopher Meek · 2004 · Bioinformatics
39. Classification and regression trees
    Luíz Paulo Lopes Fávero, Patrícia Belfiore, Rafael de Freitas Souza · 2023 · Elsevier eBooks
40. Predicting protein functions with message passing algorithms
    Michele Leone, Andrea Pagnani · 2004 · Bioinformatics
41. Genetic-algorithm selection of a regulatory structure that directs flux in a simple metabolic model
    A. Gilman, John R. Ross · 1995 · Biophysical Journal
42. Artificial Intelligence and Heuristic Methods in Bioinformatics
    Paolo Frasconi, Ron Shamir, Heuristic Methods in Bioinformatics · 2003 · Medical Entomology and Zoology
43. Multiple sequence alignment using tabu search
    Tariq Riaz, Yi Wang, Kuo-Bin Li · 2004 · Asia-Pacific Bioinformatics Conference
44. Bootstrap Analysis of Gene Networks Based on Bayesian Networks and Nonparametric Regression
    Seiya Imoto, Sun Yong Kim, Hidetoshi Shimodaira · 2002 · Proceedings Genome Informatics Workshop/Genome informatics
45. An automatic block and spot indexing with k -nearest neighbors graph for microarray image analysis
    Ho-Youl Jung, Hwan-Gue Cho · 2002 · Bioinformatics
46. A format for databasing and comparison of AFLP fingerprint profiles
    Yan Hong, Aaron Chuah · 2003 · BMC Bioinformatics
47. A Branch-and-Cut Approach to Physical Mapping of Chromosomes by Unique End-Probes
    Thomas Christof, Michael Jünger, John D. Kececioglu · 1997 · Journal of Computational Biology
48. Application of tabu search strategy for finding low energy structure of protein
    Jacek Błażewicz, Piotr Łukasiak, Maciej Miłostan · 2005 · Artificial Intelligence in Medicine
49. Aligning multiple protein sequences by parallel hybrid genetic algorithm.
    Hung Dinh Nguyen, Ikuo Yoshihara, Kunihito Yamamori · 2002 · PubMed
50. Edge Exclusion Tests for Graphical Gaussian Models
    Peter W. F. Smith, Joe Whittaker · 1998 · Springer eBooks
51. Inference of gene regulatory networks by means of dynamic differential Bayesian networks and nonparametric regression.
    Naoya Sugimoto, Hitoshi Iba · 2004 · PubMed
52. Predicting gene regulation by sigma factors in Bacillus subtilis from genome-wide data
    Michiel de Hoon, Y. Makita, Seiya Imoto, Kazuo Kobayashi, Naotaka Ogasawara, Kenta Nakai, Satoru Miyano · 2004 · Bioinformatics
53. Bioinformatics: Sequence, structure, and databanks
    2000
54. GEM: A Gaussian evolutionary method for predicting protein side‐chain conformations
    Jinn‐Moon Yang, Chi‐Hung Tsai, Ming‐Jing Hwang · 2002 · Protein Science
55. Bioinformatics Using Computational Intelligence Paradigms
    Jain, L.C, Seiffert, U, Patric Schweizer · 2005 · Studies in fuzziness and soft computing
56. RNA tertiary structure determination: NOE pathways construction by tabu search
    Jacek Błażewicz, Marta Szachniuk, Adam Wójtowicz · 2005 · Computer applications in the biosciences
57. Protein Folding in 2-Dimensional Lattices with Estimation of Distribution Algorithms
    Roberto Santana, Pedro Larrañaga, Jose Antonio Lozano · 2004 · Lecture notes in computer science
58. Probabilistic nucleotide assembling method for sequencing by hybridization
    Takaho A. Endo · 2004 · Bioinformatics
59. Alignment of possible secondary structures in multiple RNA sequences using simulated annealing
    Jin Ryoun Kim, James R. Cole, Sakti K. Pramanik · 1996 · Computer applications in the biosciences
60. Tabu search algorithm for DNA sequencing by hybridization with isothermic libraries
    Jacek Błażewicz, Piotr Formanowicz, Marta Kasprzak · 2004 · Computational Biology and Chemistry
61. Beyond the rotamer library: Genetic algorithm combined with the disturbing mutation process for upbuilding protein side‐chains
    Zhijie Liu, Lin Jiang, Ying Duo Gao · 2002 · Proteins Structure Function and Bioinformatics
62. Building protein lattice models using self-consistent mean field theory
    Patrice Koehl, Marc H. Delarue · 1998 · The Journal of Chemical Physics
63. Identification of Coding Regions in DNA Sequences Using Evolved Neural Networks
    Gary B. Fogel, Kumar Chellapilla, David B. Fogel · 2003 · Elsevier eBooks
64. Analysis of Gene Expression Profiles and Drug Activity Patterns by Clustering and Bayesian Network Learning
    Jeong-Ho Chang, Kyu‐Baek Hwang, Byoung‐Tak Zhang · 2005 · Kluwer Academic Publishers eBooks
65. Genetic algorithms for the imitation of genomic styles in protein backtranslation
    Andrés Moreira · 2004 · Theoretical Computer Science
66. A linear programming approach for identifying a consensus sequence on DNA sequences
    H.-L. Li, Chao Fu · 2005 · Computer applications in the biosciences
67. Advances in Cluster Analysis of Microarray Data
    Qizheng Sheng, Yves Moreau, Frank De Smet, Kathleen Marchal D, Bart De Moor · 2005
68. lga972: a cross-platform application for optimizing LD studies using a genetic algorithm
    Jaime R. Robles, Edwin J. C. G. van den Oord · 2004 · Bioinformatics
69. Optimization of neural network architecture using genetic programming improves detection and modeling of gene-gene interactions in studies of human diseases
    Marylyn DeRiggi Ritchie, Jason H. Moore, Bill C. White · 2019 · Carolina Digital Repository (University of North Carolina at Chapel Hill)
70. Learning Equivalence Classes of Bayesian Networks Structures
    David Maxwell Chickering · 2013 · arXiv (Cornell University)
71. Toward Effective Polypeptide Structure Prediction with Parallel Fast Messy Genetic Algorithms
    Gary B. Lamont, Larry D. Merkle · 2003 · Elsevier eBooks
72. Modeling genetic network by hybrid GP
    Shin Ando, Erina Sakamoto, H. Iba · 2003 · IEEE Congress on Evolutionary Computation (CEC)
73. Clustering Microarray Data with Evolutionary Algorithms
    Emanuel Falkenauer, Arnaud Marchand · 2003 · Elsevier eBooks
74. Evolutionary Computation and Fractal Visualization of Sequence Data
    Dan Ashlock, Jim Golden · 2003 · Elsevier eBooks
75. A Guide to the Literature on Inferring Genetic Networks by Probabilistic Graphical Models
    Pedro Larrañaga, Iñaki Inza, José Luis Flores · 2005
76. Greedy algorithms for optimized DNA sequencing
    Allon G. Percus, David C. Torney · 1999 · Symposium on Discrete Algorithms
77. A comparison of physical mapping algorithms based on the maximum likelihood model
    Jinling Huang, Suchendra M. Bhandarkar · 2003 · Bioinformatics
78. Parallel Monte Carlo methods for physical mapping of chromosomes
    Suchendra M. Bhandarkar, Jinling Huang, Jonathan Arnold · 2003
79. Simulated Annealing of Microarray Data Reduces Noise and Enables Cross-Experimental Comparisons
    Jonathan D. Wren, Minghua Yao, Marybeth Langer · 2004 · DNA and Cell Biology
80. Selective mapping: a discrete optimization approach to selecting a population subset for use in a high-density genetic mapping project
    Daniel G. Brown, Steven D. Tanksley · 2000
81. Data mining in genomics and proteomics
    Pedro Larrañaga, Ernestina Menasalvas, José M Peña · 2004 · Artificial Intelligence in Medicine
82. Tabu Search Method for Determining Sequences of Amino Acids in Long Polypeptides
    Jacek Błażewicz, Marcin Borowski, Piotr Formanowicz · 2005 · Lecture notes in computer science
83. Inferring Genetic Regulatory Networks from Microarray Experiments with Bayesian Networks
    Dirk Husmeier · 2005 · Springer eBooks
84. Guest Editors' Introduction to the Special Issue: Machine Learning for Bioinformatics-Part 1
    Charles X. Ling, William Stafford Noble, Qiang Yang · 2005 · IEEE Transactions on Computational Biology and Bioinformatics
85. Biological Sequence Assembly and Alignment
    Wei Shi, Wanlei Zhou, Yi‐Ping Phoebe Chen · 2005 · Springer eBooks