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Gerhard-W ilhelm  W EBER   *  Ayşe ÖZMEN Zehra Çavuşoğlu Özlem Defterli Institute of Applied Mathematics, METU, Ankara, Turkey *  Faculty of Economics, Management Science and Law, University of Siegen, Germany Center for Research on Optimization and Control,  U niversity of Aveiro, Portuga l  Universiti Teknologi Malaysia, Skudai,  Malaysia Forecasting  Default Probabilities  in Emerging Markets and  Dynamical Regulatory Networks  through New Robust Conic GPLMs and Optimization 6th International Summer School   Achievements and Applications of Contemporary Informatics, Mathematics and Physics National University of Technology of the Ukraine  Kiev, Ukraine,  August 8-20, 2011
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Content
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Introduction
Regression ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],MARS:   Multivariate Adaptive Regression Spline
[object Object],[object Object],MARS r egression w ith
[object Object],[object Object],[object Object],[object Object],[object Object],MARS
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],MARS
PRSS for  MARS ,[object Object],[object Object]
L  is an  matrix.   CQP and Tikhonov Regularization for  MARS
[object Object],[object Object],[object Object],CQP and Tikhonov Regularization for  MARS
[object Object],CQP for  MARS
CQP for  MARS ,[object Object]
[object Object],[object Object],[object Object],[object Object],CQP for  MARS C-MARS
Robust Optimization Laurent El Ghaoui .   Robust Optimization and Applications , IMA Tutorial, March 11, 2003
d ual  of conic program ,   .  .   .   Robust Optimization
r obust  conic  programming .   .   .   .   Robust Optimization
p olytopic  uncertainty .  .  .  Robust Optimization
r obust   C Q P CQP   ,   .   ,  .   Robust Optimization
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Robustification of  CMARS   The Idea of  Robust   CMARS (RCMARS)
General model on the relation between input and response : error term mean noisy  input data value is  random variable, and we assume that  it   is  normally distributed.  Robustification of  CMARS   The Idea of  Robust   CMARS ,
[object Object],[object Object],To employ robust optimization on CMARS , a   “perturbation”  ( uncertainty )   is   incorporate d  into the input data  (for  each dimension )  and  into the output data : will be represented as   after perturbation   Here ,   is the  mean  of the vector   in each dimension is restricted by  , which is the  semi-length of confidence interval . ;  the amount of perturbation
[object Object],[object Object],[object Object],CMARS  Model with Uncertainity Tikhonov   regularization
polyhedral  uncertainty  sets  Cartesian product . . . . vertex vertices . . . . . . . . . . . . Polyhedral Uncertainty
[object Object],Polyhedral Uncertainty and  Robust Counterpart for  CMARS Model is a  poly tope   with  vertices where  is the   convex hull .   : ,
is  the  p olytope   with  vertices   w here   is the  convex hull . Polyhedral Uncertainty and  Robust Counterpart for  CMARS Model :
Robust CQP with  the Polytopic Uncertainity Robust conic quadratic program ming   o f our  CMARS:  where  L   ice-cream (or second-order, or Lorentz) cones.   equivalently ( Standard )   C onic  Q uadratic  P rogram ming
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Generalized Linear Models
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Generalized Linear Models
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Generalized  Partial  Linear Models
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Estimation for GPLM
The Least-Squares Estimation with Tikhonov Regularization The procedure is as follows: The vector  is found by the application of the linear least squares on the given data:   (1)   Then, parametric part has the form:   To estimate the regression coefficients the method of least squares is employed: in    to minimize the residual  sum of squares (RSS). Conic GPLM (CGPLM)
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Conic GPLM The Least-Squares Estimation with Tikhonov Regularization
[object Object],[object Object],[object Object],[object Object],[object Object],Conic GPLM The Least-Squares Estimation with Tikhonov Regularization
General model on the relation between input and response :  error term mean is  random variable, and we assume that  it   is  normally distributed.  Robustification of  Conic GPLM   The Idea of  Robust   Conic GPLM is a link function that connect the mean of the response variable,  to the predictor varaibles. Then,  additive semiparametric model :
Variables of  Robust Conic GPLM Robustification of  Conic GPLM
Linear   Part of  Robust Conic GPLM A linear estimator is found as: As a Tikhonov Regularization form it can be written as: Finally, it can be  written as a standard CQP problem: Robustification of  Conic GPLM
Nonlinear Part of  Robust Conic GPLM By the help of the smooth function found by RCMARS the PRSS form is obtained: It can be converted into: Robustification of  Conic GPLM   Finally, it can be  written as a standard CQP problem:
Numerical Experience  To employ the robust optimization technique on the linear part of CGPLM model,  we include perturbation s  (uncertainty) into the real input data   in each dimension, and into the output data   ( i =1,2, … ,24).  For this purpose, the uncertainty matrices and vectors  are elements in   polyhedral uncertainty set s  for  the  linear part.  Then, uncertainty is evaluated for all input and output values which are represented by CIs.  Afterward s , we transform the variables into the  standard normal distribution , the CI is obtained to be  [ -3, 3 ] .  Robustification of  Conic GPLM
For nonlinear part, we constructed model functions for these data using  MARS Software ,  where we selected the maximum number of basis elements:   Then,  the large model becomes Robustification of  Conic GPLM   Numerical Experience
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Robustification of  Conic GPLM   Numerical Experience
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Robustification of  Conic GPLM   Numerical Experience
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Real-word Application for RCGPLM
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Real-word Application for RCGPLM
[object Object],[object Object],The Remainder  (RCMARS Part) consists of  “ -1”, “0” and “1” values Response Variable shows defaults and nondefaults consists of “0” and “1” values Real-word Application for RCGPLM
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Subgroups of Training Sample which consists of  757 observations Real-word Application for RCGPLM
Real-word Application for RCGPLM Results  and Comparision   Training Sample Validation Sample D-D ND-ND Correct Classification Rate D-D ND-ND Correct Classification Rate CGPLM 90.09% 93.24% 91.81% 86.27% 90.05% 89.31% RCGPLM 87.80% 96.20% 93.33% 96.88% 89.71% 92%
Process Version of RCGPLM Bio-Systems   medicine food education health care development sustainability bio materials bio energy environment
DNA microarray   chip  experiments prediction  of gene patterns  based on with M.U. Akhmet,  H. Öktem  S.W. Pickl,  E. Quek Ming Poh T. Ergenç,  B. Karasözen  J. Gebert,  N. Radde  Ö. Uğur,  R. Wünschiers M. Taştan,  A .  Tezel ,  P. Taylan  F.B. Yilmaz,  B. Akteke-Öztürk S. Özöğür,  Z. Alparslan-Gök  A. Soyler,  B. Soyler,  M. Çetin S. Özöğür-Akyüz,  Ö. Defterli N. Gökgöz,  E. Kropat ...  Finance Environment Health Care Medicine Process Version of RCGPLM Bio-Systems
Financial Systems  Process Version of RCGPLM
Regulatory Networks:   Examples Further examples: Socio-econo-networks, stock markets, portfolio optimization, immune system,  epidemiological processes … Process Version of RCGPLM Target variables   Environmental items Genetic Networks Gene expression Transscription factors, toxins, radiation Eco-Finance Networks CO 2 -emissions Financial means,  technical means
Modeling & Prediction  prediction,  anticipation least squares  –  max likelihood statistical learning expression data m atrix - valued function   –  metabolic reaction   E xpression Process Version of RCGPLM
Process Version of RCGPLM Ex.: M We analyze the influence of  em   -parameters  on the dynamics  ( e xpression- m etabolic). Ex.:   Euler,  Runge-Kutta , Heun Modeling & Prediction
Process Version of RCGPLM g en e 2 g en e 3 g en e 1 g en e 4 0.4   E 1 0.2  E 2 1  E 1 Genetic Networks
Process Version of RCGPLM Gene-Environment Networks
Process Version of RCGPLM The Model Class d- vector  of concentration levels of proteins and  of certain levels of environmental factors  d =  m + n   continuous change in the gene-expression data in time   is the firstly introduced time-autonomous form, where nonlinearities initial values of the gene-exprssion levels :  experimental data vectors obtained from microarray experiments  and environmental measurements  :  the gene-expression level (concentration rate) of the  i  th gene at time  t   denotes anyone of the first  n   coordinates in the d- vector  of genetic and environmental states. is the set of genes. Weber et al. (2008c), Chen et al. (1999),  Gebert et al. (2004a), Gebert et al. (2006), Gebert et al. (2007),  Tastan (2005), Yilmaz (2004), Yilmaz et al. (2005), Sakamoto and Iba (2001), Tastan et al. (2005)
Process Version of RCGPLM ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],environmental  effects n  genes ,  m   environmental  effects are ( n+m )-vector and  ( n+m ) x ( n+m )-matrix, respectively. Weber et al. (2008c), Tastan (2005),  Tastan et al. (2006), Ugur et al. (2009), Tastan et al. (2005),  Yilmaz (2004), Yilmaz et al. (2005), Weber et al. (2008b), Weber et al. (2009b) The Model Class splines or wavelets containing some parameters to be optimized .
θ 1 θ 2 Regulatory Networks  under  Uncertainty Process Version of RCGPLM Errors uncorrelated Errors correlated Fuzzy values Interval arithmetics Ellipsoidal calculus Fuzzy arithmetics
Process Version of RCGPLM Robustification of GPLM Approach for Regulatory, Dynamical Systems   W e can represent their generalized multiplicative form with our GPLM approach as follows : represents the expression levels of targets,  consists of environmental factors which affect the targets in the network ,   is called as  network matrix  ,  which  can be identified by solving the following  least-squares (or maximum  likelihood) estimation problem:  :  some vector of unknowns
Process Version of RCGPLM Robustification of GPLM Approach for Regulatory, Dynamical Systems   W e represent the process version of the GPLM formulation in the following way: corresponding to the parameters of  The  unknown parameters appearing inside of  ( nonlinear part ).   can be collected separately  vector s   ( linear part ),  corresponding to the parameters of  Hence,
When the entiries of the matrix  are splines, to solve the problem given in ( ** ) ,   CGPLM  can be used for target-environment networks.  Process Version of RCGPLM Robustification of GPLM Approach for Regulatory, Dynamical Systems   Furthermore , in the case of the existence of uncertainty in the expression data,  then the presented  RCGPLM   technique can be applied with  RCMARS  in order to study a robustification of our target-environment networks.  Then, for each row of the matrix equation in ( * ), we represent  the process version of the  RCGPLM  model  in the subsequent manner:
Aster, A., Borchers, B., and Thurber, C., Parameter Estimation and Inverse Problems, Academic Press, 2004. Ben-Tal, A.,   Nemirovski, A., Lectures on Modern Convex Optimization: Analysis, Algorithms, and Engineering  Applications, MPR-SIAM Series on Optimization, SIAM, Philadelphia, 2001 . Chen, T., He, H.L., and Church, G.M., Modeling gene expression with differential equations, Proceedings of Pacific Symposium on Biocomputing 1999, 29-40. Defterli, O., Fügenschuh, A, and Weber, G-W., New discretization and optimization techniques with results in the dynamics of gene- environment networks. In: Proceedings of  the 3rd Global Conference on Power Control & Optimization (PCO 2010),  Editors: N. Barsoum, P. Vasant, R. Habash, ISBN:   978-983-44483-1-8.  Defterli, O., Fügenschuh, A., and Weber, G.-W., Modern Tools For The Tıme-dıscrete Dynamıcs and Optımızatıon Of Gene-envıronment Networks, Communications in Nonlinear Science and Numerical Simulation, in press, 2011.   El Ghaoui, L., Robust Optimization and Applications, IMA Tutorial, 2003.  Ergenc, T., and Weber, G.-W., Modeling and prediction of gene-expression patterns reconsidered with Runge-Kutta  discretization, Journal of Computational Technologies  9, 6 (2004) 40-48. Friedman, J.H., Multivariate adaptive regression splines, The Annals of Statistics 19, 1 (1991) 1-141. Hansen, P.C., Rank-Deficient and Discrete Ill-Posed Problems: Numerical Aspects of Linear Inversion, SIAM, Philadelphia,  1998.  Hastie, T.,   Tibshirani, R., and  Friedman, J.H., The Element of Statistical Learning, Springer Verlag, NY, 2001. Hoon, M.D., Imoto, S., Kobayashi, K., Ogasawara, N ., and Miyano, S., Inferring gene regulatory networks from time-ordered gene expression data of Bacillus subtilis using dierential equations, Proceedings of Pacific Symposium on Biocomputing (2003) 17-28.  Gebert, J., Laetsch, M., Pickl, S.W., Weber, G.-W., and Wünschiers ,R.,  Genetic networks and anticipation of gene expression patterns,  Computing Anticipatory Systems : CASYS(92)03 - Sixth International Conference, AIP Conference Proceedings 718 (2004) 474-485. Kropat,   E., Weber, G.-W. ,  Robust regression analysis for gene-environment and eco-finance networks under polyhedral and ellipsoidal uncertainty. preprint_2 (2010) at Institute of Applied Mathematics, METU . Myers, R.H., and Montgomery, D.C., Response Surface Methodology: Process and Product Optimization Using Designed Experiments,New York: Wiley (2002). Nemirovski, A., Lectures on modern convex optimization, Israel Institute Technology (2002),  http://iew3.technion.ac.il/Labs/Opt/LN/Final.pdf .  Nesterov, Y.E., and Nemirovskii, A.S., Interior Point Methods in Convex Programming, SIAM, 1993. References
Özmen, A., Weber, G.-W., Batmaz, I.  and  Kropat E .,  RCMARS:   Robustification of CMARS with  Different Scenarios under Polyhedral Uncertainty Set. To appear in Communications in Nonlinear Science and Numerical Simulation (CNSNS), Special Issue Nonlinear, Fractional and Complex Systems with Discontinuity and Chaos, D. Baleanu and J.A. Tenreiro Machado (guest editors) , 2010 . Özmen, A., Weber, G.-W. , and   Kerimov ,  A . ,  RCMARS: A New Optimization Supported Tool - Applied on Financial Market Data -under Polyhedral Uncertainty ,  preprint at Institute of Applied Mathematics, METU ,submitted to JOGO, 2010 . Özmen, A., Weber, G.-W. , Çavuşoglu Z.,   and Defterli Ö.,  The New Robust Conic GPLM Method with an Application to Finance and Regulatory Systems: Prediction of Credit Default and a Process Version ,  preprint at Institute of Applied Mathematics, METU ,submitted to JOGO,   2010 . Özmen, A.,  and  Weber, G.-W.: Robust Conic Generalized Partial Linear Models Using RCMARS Method – A Robustification of CGPLM. preprint at Institute of Applied Mathematics, METU, in Proceedings of Fifth Global Conference on Power Control and Optimization PCO ,  June 1 – 3, 2011,  Dubai, ISBN: 983-44483-49 . Pickl, S.W., and Weber, G.-W., Optimization of a time-discrete nonlinear dynamical system from a problem of ecology - an analytical and numerical approach, Journal of Computational Technologies 6, 1 (2001) 43-52. Sakamoto, E., and Iba, H., Inferring a system of differential equations for a gene regulatory network by using genetic programming, Proc. Congress on Evolutionary Computation 2001, 720-726. Tastan, M., Analysis and Prediction of Gene Expression Patterns by Dynamical Systems, and by a Combinatorial Algorithm, MSc Thesis, Institute of Applied Mathematics, METU, Turkey, 2005. Tastan, M., Pickl, S.W., and Weber, G.-W., Mathematical modeling and stability analysis of gene-expression patterns in an extended space and with Runge-Kutta discretization,  Proceedings of Operations Research, Bremen, 2006, 443-450. Weber, G.-W., Batmaz, I., Köksal G., Taylan P., and Yerlikaya F., 2009. CMARS: A New Contribution to Nonparametric Regression with Multivariate Adaptive Regression Splines Supported by Continuous Optimisation, preprint at IAM, METU, submitted for publication.  Weber, G.-W., Çavuşoğlu Z.,  and  Özmen A. ,  Predicting Default Probabilities in Emerging Markets by New Conic Generalized Partial Linear Models and Their Optimization.  To appear in Advances in Continuous Optimization with Applications in Finance, Special Issue Optimization ,2010
Weber, G.-W., Alparslan -Gök, S.Z., and Dikmen, N., Environmental and life sciences:  Gene-environment networks-optimization, games and control - a survey on recent achievements, deTombe, D. (guest ed.), special issue of Journal of Organizational Transformation and Social Change 5, 3 (2008) 197-233. Weber, G.-W., Taylan, P., Alparslan-Gök, S.Z., Özögur, S., and Akteke-Öztürk, B., Optimization of gene-environment networks in the presence of errors and uncertainty with Chebychev approximation, TOP 16, 2 (2008) 284-318. Weber, G.-W., Alparslan-Gök, S.Z., and Söyler, B., A new mathematical approach in environmental and life sciences: gene-environment networks and their dynamics,Environmental Modeling & Assessment 14, 2 (2009) 267-288. Weber, G.-W.,  and Ugur, O., Optimizing gene-environment networks: generalized semi-infinite programming approach with intervals, Proceedings of International Symposium on Health Informatics and Bioinformatics Turkey '07, HIBIT, Antalya, Turkey, April 30 - May 2 (2007). Yılmaz, F.B., A Mathematical Modeling and Approximation of Gene Expression Patterns by Linear and Quadratic Regulatory Relations and Analysis of Gene Networks, MSc Thesis, Institute of Applied Mathematics, METU, Turkey, 2004. Weber, G.-W., Kropat, E., Tezel, A., and Belen, S., Optimization applied on on regulatory and eco-finance networks – survey and new development.  Pacific J. Optim. 6(2), 319-340 (2010) .
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Forecasting Default Probabilities in Emerging Markets and Dynamical Regulatory Networks through New Robust Conic GPLMs and Optimization

  • 1. Gerhard-W ilhelm W EBER * Ayşe ÖZMEN Zehra Çavuşoğlu Özlem Defterli Institute of Applied Mathematics, METU, Ankara, Turkey * Faculty of Economics, Management Science and Law, University of Siegen, Germany Center for Research on Optimization and Control, U niversity of Aveiro, Portuga l Universiti Teknologi Malaysia, Skudai, Malaysia Forecasting Default Probabilities in Emerging Markets and Dynamical Regulatory Networks through New Robust Conic GPLMs and Optimization 6th International Summer School Achievements and Applications of Contemporary Informatics, Mathematics and Physics National University of Technology of the Ukraine Kiev, Ukraine, August 8-20, 2011
  • 2.
  • 3.
  • 4.
  • 5.
  • 6.
  • 7.
  • 8.
  • 9.
  • 10. L is an matrix. CQP and Tikhonov Regularization for MARS
  • 11.
  • 12.
  • 13.
  • 14.
  • 15. Robust Optimization Laurent El Ghaoui . Robust Optimization and Applications , IMA Tutorial, March 11, 2003
  • 16. d ual of conic program , . . . Robust Optimization
  • 17. r obust conic programming . . . . Robust Optimization
  • 18. p olytopic uncertainty . . . Robust Optimization
  • 19. r obust C Q P CQP , . , . Robust Optimization
  • 20.
  • 21. General model on the relation between input and response : error term mean noisy input data value is random variable, and we assume that it is normally distributed. Robustification of CMARS The Idea of Robust CMARS ,
  • 22.
  • 23.
  • 24. polyhedral uncertainty sets Cartesian product . . . . vertex vertices . . . . . . . . . . . . Polyhedral Uncertainty
  • 25.
  • 26. is the p olytope with vertices w here is the convex hull . Polyhedral Uncertainty and Robust Counterpart for CMARS Model :
  • 27. Robust CQP with the Polytopic Uncertainity Robust conic quadratic program ming o f our CMARS: where L ice-cream (or second-order, or Lorentz) cones. equivalently ( Standard ) C onic Q uadratic P rogram ming
  • 28.
  • 29.
  • 30.
  • 31.
  • 32. The Least-Squares Estimation with Tikhonov Regularization The procedure is as follows: The vector is found by the application of the linear least squares on the given data: (1) Then, parametric part has the form: To estimate the regression coefficients the method of least squares is employed: in to minimize the residual sum of squares (RSS). Conic GPLM (CGPLM)
  • 33.
  • 34.
  • 35. General model on the relation between input and response : error term mean is random variable, and we assume that it is normally distributed. Robustification of Conic GPLM The Idea of Robust Conic GPLM is a link function that connect the mean of the response variable, to the predictor varaibles. Then, additive semiparametric model :
  • 36. Variables of Robust Conic GPLM Robustification of Conic GPLM
  • 37. Linear Part of Robust Conic GPLM A linear estimator is found as: As a Tikhonov Regularization form it can be written as: Finally, it can be written as a standard CQP problem: Robustification of Conic GPLM
  • 38. Nonlinear Part of Robust Conic GPLM By the help of the smooth function found by RCMARS the PRSS form is obtained: It can be converted into: Robustification of Conic GPLM Finally, it can be written as a standard CQP problem:
  • 39. Numerical Experience To employ the robust optimization technique on the linear part of CGPLM model, we include perturbation s (uncertainty) into the real input data in each dimension, and into the output data ( i =1,2, … ,24). For this purpose, the uncertainty matrices and vectors are elements in polyhedral uncertainty set s for the linear part. Then, uncertainty is evaluated for all input and output values which are represented by CIs. Afterward s , we transform the variables into the standard normal distribution , the CI is obtained to be [ -3, 3 ] . Robustification of Conic GPLM
  • 40. For nonlinear part, we constructed model functions for these data using MARS Software , where we selected the maximum number of basis elements: Then, the large model becomes Robustification of Conic GPLM Numerical Experience
  • 41.
  • 42.
  • 43.
  • 44.
  • 45.
  • 46.
  • 47. Real-word Application for RCGPLM Results and Comparision   Training Sample Validation Sample D-D ND-ND Correct Classification Rate D-D ND-ND Correct Classification Rate CGPLM 90.09% 93.24% 91.81% 86.27% 90.05% 89.31% RCGPLM 87.80% 96.20% 93.33% 96.88% 89.71% 92%
  • 48. Process Version of RCGPLM Bio-Systems medicine food education health care development sustainability bio materials bio energy environment
  • 49. DNA microarray chip experiments prediction of gene patterns based on with M.U. Akhmet, H. Öktem S.W. Pickl, E. Quek Ming Poh T. Ergenç, B. Karasözen J. Gebert, N. Radde Ö. Uğur, R. Wünschiers M. Taştan, A . Tezel , P. Taylan F.B. Yilmaz, B. Akteke-Öztürk S. Özöğür, Z. Alparslan-Gök A. Soyler, B. Soyler, M. Çetin S. Özöğür-Akyüz, Ö. Defterli N. Gökgöz, E. Kropat ... Finance Environment Health Care Medicine Process Version of RCGPLM Bio-Systems
  • 50. Financial Systems Process Version of RCGPLM
  • 51. Regulatory Networks: Examples Further examples: Socio-econo-networks, stock markets, portfolio optimization, immune system, epidemiological processes … Process Version of RCGPLM Target variables Environmental items Genetic Networks Gene expression Transscription factors, toxins, radiation Eco-Finance Networks CO 2 -emissions Financial means, technical means
  • 52. Modeling & Prediction prediction, anticipation least squares – max likelihood statistical learning expression data m atrix - valued function – metabolic reaction E xpression Process Version of RCGPLM
  • 53. Process Version of RCGPLM Ex.: M We analyze the influence of em -parameters on the dynamics ( e xpression- m etabolic). Ex.: Euler, Runge-Kutta , Heun Modeling & Prediction
  • 54. Process Version of RCGPLM g en e 2 g en e 3 g en e 1 g en e 4 0.4 E 1 0.2 E 2 1 E 1 Genetic Networks
  • 55. Process Version of RCGPLM Gene-Environment Networks
  • 56. Process Version of RCGPLM The Model Class d- vector of concentration levels of proteins and of certain levels of environmental factors d = m + n continuous change in the gene-expression data in time is the firstly introduced time-autonomous form, where nonlinearities initial values of the gene-exprssion levels : experimental data vectors obtained from microarray experiments and environmental measurements : the gene-expression level (concentration rate) of the i th gene at time t denotes anyone of the first n coordinates in the d- vector of genetic and environmental states. is the set of genes. Weber et al. (2008c), Chen et al. (1999), Gebert et al. (2004a), Gebert et al. (2006), Gebert et al. (2007), Tastan (2005), Yilmaz (2004), Yilmaz et al. (2005), Sakamoto and Iba (2001), Tastan et al. (2005)
  • 57.
  • 58. θ 1 θ 2 Regulatory Networks under Uncertainty Process Version of RCGPLM Errors uncorrelated Errors correlated Fuzzy values Interval arithmetics Ellipsoidal calculus Fuzzy arithmetics
  • 59. Process Version of RCGPLM Robustification of GPLM Approach for Regulatory, Dynamical Systems W e can represent their generalized multiplicative form with our GPLM approach as follows : represents the expression levels of targets, consists of environmental factors which affect the targets in the network , is called as network matrix , which can be identified by solving the following least-squares (or maximum likelihood) estimation problem: : some vector of unknowns
  • 60. Process Version of RCGPLM Robustification of GPLM Approach for Regulatory, Dynamical Systems W e represent the process version of the GPLM formulation in the following way: corresponding to the parameters of The unknown parameters appearing inside of ( nonlinear part ). can be collected separately vector s ( linear part ), corresponding to the parameters of Hence,
  • 61. When the entiries of the matrix are splines, to solve the problem given in ( ** ) , CGPLM can be used for target-environment networks. Process Version of RCGPLM Robustification of GPLM Approach for Regulatory, Dynamical Systems Furthermore , in the case of the existence of uncertainty in the expression data, then the presented RCGPLM technique can be applied with RCMARS in order to study a robustification of our target-environment networks. Then, for each row of the matrix equation in ( * ), we represent the process version of the RCGPLM model in the subsequent manner:
  • 62. Aster, A., Borchers, B., and Thurber, C., Parameter Estimation and Inverse Problems, Academic Press, 2004. Ben-Tal, A., Nemirovski, A., Lectures on Modern Convex Optimization: Analysis, Algorithms, and Engineering Applications, MPR-SIAM Series on Optimization, SIAM, Philadelphia, 2001 . Chen, T., He, H.L., and Church, G.M., Modeling gene expression with differential equations, Proceedings of Pacific Symposium on Biocomputing 1999, 29-40. Defterli, O., Fügenschuh, A, and Weber, G-W., New discretization and optimization techniques with results in the dynamics of gene- environment networks. In: Proceedings of  the 3rd Global Conference on Power Control & Optimization (PCO 2010),  Editors: N. Barsoum, P. Vasant, R. Habash, ISBN: 978-983-44483-1-8. Defterli, O., Fügenschuh, A., and Weber, G.-W., Modern Tools For The Tıme-dıscrete Dynamıcs and Optımızatıon Of Gene-envıronment Networks, Communications in Nonlinear Science and Numerical Simulation, in press, 2011. El Ghaoui, L., Robust Optimization and Applications, IMA Tutorial, 2003. Ergenc, T., and Weber, G.-W., Modeling and prediction of gene-expression patterns reconsidered with Runge-Kutta discretization, Journal of Computational Technologies 9, 6 (2004) 40-48. Friedman, J.H., Multivariate adaptive regression splines, The Annals of Statistics 19, 1 (1991) 1-141. Hansen, P.C., Rank-Deficient and Discrete Ill-Posed Problems: Numerical Aspects of Linear Inversion, SIAM, Philadelphia, 1998. Hastie, T., Tibshirani, R., and Friedman, J.H., The Element of Statistical Learning, Springer Verlag, NY, 2001. Hoon, M.D., Imoto, S., Kobayashi, K., Ogasawara, N ., and Miyano, S., Inferring gene regulatory networks from time-ordered gene expression data of Bacillus subtilis using dierential equations, Proceedings of Pacific Symposium on Biocomputing (2003) 17-28. Gebert, J., Laetsch, M., Pickl, S.W., Weber, G.-W., and Wünschiers ,R., Genetic networks and anticipation of gene expression patterns, Computing Anticipatory Systems : CASYS(92)03 - Sixth International Conference, AIP Conference Proceedings 718 (2004) 474-485. Kropat, E., Weber, G.-W. , Robust regression analysis for gene-environment and eco-finance networks under polyhedral and ellipsoidal uncertainty. preprint_2 (2010) at Institute of Applied Mathematics, METU . Myers, R.H., and Montgomery, D.C., Response Surface Methodology: Process and Product Optimization Using Designed Experiments,New York: Wiley (2002). Nemirovski, A., Lectures on modern convex optimization, Israel Institute Technology (2002), http://iew3.technion.ac.il/Labs/Opt/LN/Final.pdf . Nesterov, Y.E., and Nemirovskii, A.S., Interior Point Methods in Convex Programming, SIAM, 1993. References
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