An Effective Method for the Inference of Reduced S-system Models of Genetic Networks
暂无分享,去创建一个
Shuhei Kimura | Masanao Sato | Mariko Okada-Hatakeyama | Masanao Sato | M. Okada‐Hatakeyama | Shuhei Kimura
[1] Hitoshi Iba,et al. Reverse engineering gene regulatory network from microarray data using linear time-variant model , 2010, BMC Bioinformatics.
[2] G. Walker,et al. The SOS response: recent insights into umuDC-dependent mutagenesis and DNA damage tolerance. , 2000, Annual review of genetics.
[3] I. Chou,et al. Recent developments in parameter estimation and structure identification of biochemical and genomic systems. , 2009, Mathematical biosciences.
[4] Michael J. Todd,et al. The many facets of linear programming , 2002, Math. Program..
[5] Araceli M. Huerta,et al. From specific gene regulation to genomic networks: a global analysis of transcriptional regulation in Escherichia coli. , 1998, BioEssays : news and reviews in molecular, cellular and developmental biology.
[6] W. Cleveland. Robust Locally Weighted Regression and Smoothing Scatterplots , 1979 .
[7] Shuhei Kimura,et al. Inference of S-system models of genetic networks using a cooperative coevolutionary algorithm , 2005, Bioinform..
[8] Eberhard O. Voit,et al. Computational Analysis of Biochemical Systems: A Practical Guide for Biochemists and Molecular Biologists , 2000 .
[9] J. Vohradský. Neural network model of gene expression , 2001, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.
[10] U. Alon,et al. Assigning numbers to the arrows: Parameterizing a gene regulation network by using accurate expression kinetics , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[11] Eberhard O Voit,et al. Parameter estimation in biochemical systems models with alternating regression , 2006, Theoretical Biology and Medical Modelling.
[12] J. Collins,et al. Inferring Genetic Networks and Identifying Compound Mode of Action via Expression Profiling , 2003, Science.
[13] Satoru Miyano,et al. Inferring qualitative relations in genetic networks and metabolic pathways , 2000, Bioinform..
[14] Masaru Tomita,et al. Dynamic modeling of genetic networks using genetic algorithm and S-system , 2003, Bioinform..
[15] Mariko Okada-Hatakeyama,et al. Inference of Vohradský's Models of Genetic Networks by Solving Two-Dimensional Function Optimization Problems , 2013, PloS one.
[16] Chris Wiggins,et al. ARACNE: An Algorithm for the Reconstruction of Gene Regulatory Networks in a Mammalian Cellular Context , 2004, BMC Bioinformatics.
[17] William H. Press,et al. Numerical Recipes in C, 2nd Edition , 1992 .
[18] Byoung-Tak Zhang,et al. Identification of biochemical networks by S-tree based genetic programming , 2006, Bioinform..
[19] Jesper Tegnér,et al. Reverse engineering gene networks using singular value decomposition and robust regression , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[20] S. Kimura,et al. Inference of S-system models of genetic networks by solving one-dimensional function optimization problems. , 2012, Mathematical biosciences.
[21] Feng-Sheng Wang,et al. Inference of biochemical network models in S-system using multiobjective optimization approach , 2008, Bioinform..
[22] H. Akaike,et al. Information Theory and an Extension of the Maximum Likelihood Principle , 1973 .
[23] Sanjay Mehrotra,et al. A model-based optimization framework for the inference on gene regulatory networks from DNA array data , 2004, Bioinform..
[24] Jonas S. Almeida,et al. Decoupling dynamical systems for pathway identification from metabolic profiles , 2004, Bioinform..
[25] Prospero C. Naval,et al. Parameter estimation using Simulated Annealing for S-system models of biochemical networks , 2007, Bioinform..
[26] Nishanth G. Chemmangattuvalappil,et al. An integer optimization algorithm for robust identification of non-linear gene regulatory networks , 2012, BMC Systems Biology.
[27] Shigenobu Kobayashi,et al. The Frontiers of Real-coded Genetic Algorithms , 2009 .
[28] M. Savageau. Biochemical systems analysis. II. The steady-state solutions for an n-pool system using a power-law approximation. , 1969, Journal of theoretical biology.
[29] Jonas S. Almeida,et al. Automated smoother for the numerical decoupling of dynamics models , 2007, BMC Bioinformatics.
[30] Feng-Sheng Wang,et al. Evolutionary optimization with data collocation for reverse engineering of biological networks , 2005, Bioinform..
[31] Isao Ono,et al. Method for inferring and extracting reliable genetic interactions from time-series profile of gene expression. , 2008, Mathematical biosciences.