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@CONFERENCE{WASET2009,
  author = {Rafał Adamczak},
  title = {Dimensionality reduction of PSSM matrix and its influence on secondary
	structure and relative solvent accessibility predictions},
  booktitle = {World Academy Of Science, Engineering And Technology},
  year = {2009},
  volume = {58},
  pages = {657-664},
  month = {October},
  owner = {raad},
  timestamp = {2009.11.03}
}

@INPROCEEDINGS{AdamczakFSM97,
  author = {R. Adamczak and W. Duch and N. Jankowski},
  title = {New developments in the Feature Space Mapping model},
  booktitle = {Third Conference on Neural Networks and Their Applications},
  year = {1997},
  pages = {65--70},
  address = {Kule, Poland},
  month = {Oct}
}

@INPROCEEDINGS{BiesiadaDKMP05,
  author = {J. Biesiada and W.~Duch and A. Kachel and K. Maczka and S. Palucha},
  title = {Feature ranking methods based on information entropy with Parzen
	windows},
  booktitle = {Proceedings of the 9th International Conference on Research in Electrotechnology
	and Applied Informatics (REI'05)},
  year = {2005},
  pages = {109--119},
  address = {Katowice-Kraków, Poland}
}

@INBOOK{Blachnik08,
  chapter = {Prototype rules from {SVM}},
  pages = {163-184},
  title = {Rule Extraction from Support Vector Machines},
  publisher = {Springer},
  year = {2008},
  editor = {J. Diederich},
  author = {M. Blachnik and W. Duch},
  volume = {80},
  series = {Springer Studies in Computational Intelligence}
}

@ARTICLE{Blachnik08a,
  author = {M. Blachnik and W. Duch},
  title = {{Building Localized Basis Function Networks Using Context Dependent
	Clustering}},
  journal = {Lecture Notes in Computer Science},
  year = {2008},
  volume = {5163},
  pages = {953-962}
}

@ARTICLE{Blachnik06,
  author = {M. Blachnik and W. Duch},
  title = {{Prototype-based threshold rules}},
  journal = {Lecture Notes in Computer Science},
  year = {2006},
  volume = {4234},
  pages = {1028--1037}
}

@ARTICLE{BlachnikSel06,
  author = {M.~Blachnik and W.~Duch and T.~Wieczorek},
  title = {Selection of prototypes rules – context searching via clustering},
  journal = {Lecture Notes in Artificial Intelligence},
  year = {2006},
  volume = {4029},
  pages = {573--582}
}

@INPROCEEDINGS{BlachnikDW05,
  author = {M. Blachnik and W.~Duch and T.~Wieczorek},
  title = {Probabilistic distance measures for prototype-based rules},
  booktitle = {Proc. of the 12th Int. Conference on Neural Information Processing
	(ICONIP'2005)},
  year = {2005},
  pages = {445--450},
  address = {Taiwan},
  publisher = {Taipei University Press}
}

@ARTICLE{DoboszFSD09,
  author = {K. Dobosz and W. Duch},
  title = {Understanding Neurodynamical Systems via Fuzzy Symbolic Dynamics.},
  journal = {Neural Networks},
  year = {2010},
  volume = {23},
  pages = {487-496},
  owner = {Duch},
  timestamp = {2009.05.27},
  url = {http://dx.doi.org/10.1016/j.neunet.2009.12.005}
}

@ARTICLE{DoboszFSD08,
  author = {K. Dobosz and W. Duch},
  title = {Fuzzy Symbolic Dynamics for Global Visualization.},
  journal = {Lecture Notes in Computer Science},
  year = {2008},
  volume = {5164},
  pages = {471-478},
  owner = {Duch},
  timestamp = {2009.07.07}
}

@INCOLLECTION{DuchPlatonic97,
  author = {W.~Duch},
  title = {Platonic model of mind as an approximation to neurodynamics},
  booktitle = {Brain-like computing and intelligent information systems},
  publisher = {Springer},
  year = {1997},
  editor = {S-i. Amari and N. Kasabov},
  pages = {491--512}
}

@INBOOK{DuchDementia07,
  chapter = {Computational Models of Dementia and Neurological Problems. Ch. 17},
  pages = {307-336},
  title = {Neuroinformatics},
  publisher = {Humana Press, Totowa, NJ},
  year = {2007},
  editor = {C.J. Crasto},
  author = {W. Duch},
  series = {Methods in Molecular Biology},
  note = {(J. Walker, series ed.)},
  owner = {Duch},
  timestamp = {2009.07.07}
}

@INCOLLECTION{Duchfound07,
  author = {W. Duch},
  title = {Towards comprehensive foundations of computational intelligence},
  booktitle = {Challenges for Computational Intelligence},
  publisher = {Springer},
  year = {2007},
  editor = {W. Duch and J. Mandziuk},
  volume = {63},
  pages = {261-316}
}

@INCOLLECTION{Duchwhat07,
  author = {W. Duch},
  title = {What Is Computational Intelligence and Where Is It Going},
  booktitle = {Challenges for Computational Intelligence},
  publisher = {Springer},
  year = {2007},
  editor = {W. Duch and J. Mandziuk},
  volume = {63},
  pages = {1-13}
}

@INCOLLECTION{Duchfilter06,
  author = {W. Duch},
  title = {Filter Methods},
  booktitle = {Feature extraction, foundations and applications},
  publisher = {Physica Verlag, Springer},
  year = {2006},
  editor = {I. Guyon and S. Gunn and M. Nikravesh and L. Zadeh},
  pages = {89--118},
  address = {Berlin, Heidelberg, New York}
}

@INCOLLECTION{duchinternal05,
  author = {W.~Duch},
  title = {Internal representations of multi-layered perceptrons},
  booktitle = {Issues in Intelligent Systems: Paradigms},
  publisher = {Exit},
  year = {2005},
  editor = {O. Hryniewicz and J. Kacprzyk and J. Koronacki and S.T. Wierzchon},
  pages = {49--62},
  address = {Warsaw, Poland}
}

@INCOLLECTION{duchvisI04,
  author = {W.~Duch},
  title = {Visualization of hidden node activity in neural networks: I. Visualization
	methods},
  booktitle = {Lecture Notes in Artificial Intelligence},
  publisher = {Physica Verlag, Springer},
  year = {2004},
  editor = {L. Rutkowski and J. Siekemann and R. Tadeusiewicz and L. Zadeh},
  volume = {3070},
  pages = {38-43},
  address = {Berlin, Heidelberg, New York}
}

@INCOLLECTION{duchvisII04,
  author = {W.~Duch},
  title = {Visualization of hidden node activity in neural networks: II. Application
	to RBF networks},
  booktitle = {Lecture Notes in Artificial Intelligence},
  publisher = {Physica Verlag, Springer},
  year = {2004},
  editor = {L. Rutkowski and J. Siekemann and R. Tadeusiewicz and L. Zadeh},
  volume = {3070},
  pages = {44-49},
  address = {Berlin, Heidelberg, New York}
}

@INBOOK{DuchBiocybC18R00,
  chapter = {Sieci neuronowe w modelowaniu zaburzeń neuropsychologicznych i chorób
	psychicznych.},
  pages = {589-616},
  title = {Biocybernetyka 2000, Tom 6: Sieci neuronowe, rozdz. II.18},
  year = {2000},
  editor = {W. Duch, J. Korbicz, L. Rutkowski, R. Tadeusiewicz},
  author = {W. Duch},
  owner = {Duch},
  timestamp = {2009.07.07}
}

@INPROCEEDINGS{Duchagnosia09,
  author = {W. Duch},
  title = {Imagery Agnosia: what goes on in my head?},
  booktitle = {Coma and Consciousness, Clinical, Societal and Ethical Implications.
	Satellite Symposium of the 13th Annual Meeting of the Association
	for the Scientific Studies of Consciousness, Berlin, 4-5 June 2009},
  year = {2009},
  pages = {46},
  owner = {Duch},
  timestamp = {2009.11.01}
}

@INPROCEEDINGS{DuchComaA09,
  author = {W. Duch},
  title = {Consciousness and Attention in Autism Spectrum Disorders.},
  booktitle = {Coma and Consciousness. Clinical, Societal and Ethical Implications},
  year = {2009},
  pages = {46-46},
  organization = {Satellite Symposium of the 13th Annual Meeting of the Association
	for the Scientific Studies of Consciousness, Berlin, 4-5 June 2009},
  owner = {Duch},
  timestamp = {2009.07.07}
}

@INCOLLECTION{DuchManif09,
  author = {Duch, W},
  title = {Neurocognitive Informatics Manifesto.},
  booktitle = {8th Int Conf on Information and Management Sciences (IMS 2009)},
  publisher = {California Polytechnic State University},
  year = {2009},
  series = {Series of Information and Management Sciences},
  pages = {264-282},
  owner = {Duch},
  timestamp = {2012.03.31}
}

@ARTICLE{DuchIntuition08,
  author = {W. Duch},
  title = {Intuition, Insight, Imagination and Creativity.},
  journal = {IEEE Computational Intelligence Magazine},
  year = {2008},
  volume = {2(3)},
  pages = {40-52},
  owner = {Duch},
  timestamp = {2009.03.20}
}

@INPROCEEDINGS{Duch06c,
  author = {W. Duch},
  title = {Computational Creativity},
  booktitle = {World Congres on Computational Intelligence, Vancouver, Canada},
  year = {2006},
  pages = {1162--1169},
  publisher = {IEEE Press}
}

@ARTICLE{DuchKsep06,
  author = {W.~Duch},
  title = {$K$-separability},
  journal = {Lecture Notes in Computer Science},
  year = {2006},
  volume = {4131},
  pages = {188--197}
}

@ARTICLE{DuchJMB05,
  author = {W. Duch},
  title = {Brain-inspired conscious computing architecture},
  journal = {Journal of Mind and Behavior},
  year = {2005},
  volume = {26},
  pages = {1--22}
}

@ARTICLE{DuchSVNT05,
  author = {W. Duch},
  title = {Support Vector Neural Training},
  journal = {Lecture Notes in Computer Science},
  year = {2005},
  volume = {3697},
  pages = {67--72}
}

@ARTICLE{FuzzyMLP05,
  author = {W.~Duch},
  title = {Uncertainty of data, fuzzy membership functions, and multi-layer
	perceptrons},
  journal = {IEEE Transactions on Neural Networks},
  year = {2005},
  volume = {16},
  pages = {10--23}
}

@INCOLLECTION{duchcoloring03,
  author = {W.~Duch},
  title = {Coloring black boxes: visualization of neural network decisions},
  booktitle = {Int. Joint Conf. on Neural Networks, Portland, Oregon},
  publisher = {IEEE Press},
  year = {2003},
  volume = {I},
  pages = {1735-1740}
}

@ARTICLE{DuchJMIT00,
  author = {W.~ Duch},
  title = {Therapeutic applications of computer models of brain activity for
	Alzheimer disease},
  journal = {J. Medical Informatics and Technologies},
  year = {2000},
  volume = {5},
  pages = {27--34}
}

@ARTICLE{DuchSBM00,
  author = {W.~ Duch},
  title = {Similarity based methods: a general framework for classification,
	approximation and association},
  journal = {Control and Cybernetics},
  year = {2000},
  volume = {29},
  pages = {937--968}
}

@INPROCEEDINGS{min-dist-nn97,
  author = {W. Duch},
  title = {Neural minimal distance methods},
  booktitle = {Proceedings 3-rd Conference on Neural Networks and Their Applications},
  year = {1997},
  pages = {183--188},
  address = {Kule, Poland},
  month = {Oct}
}

@ARTICLE{Duch96,
  author = {W.~Duch},
  title = {Computational physics of the mind},
  journal = {Computer Physics Communication},
  year = {1996},
  volume = {97},
  pages = {136-153}
}

@ARTICLE{Duchmds95,
  author = {W. Duch},
  title = {Quantitative measures for the self-organized topographical mapping.},
  journal = {Open Systems and Information Dynamics},
  year = {1995},
  volume = {2},
  pages = {295--302}
}

@INPROCEEDINGS{DuchFSM00,
  author = {W.~ Duch and R.~Adamczak and G.H.F.~Diercksen},
  title = {Feature space mapping neural network applied to structure-activity
	relationship problems},
  booktitle = {7th International Conference on Neural Information Processing (ICONIP'2000)},
  year = {2000},
  editor = {Soo-Young Lee},
  pages = {270--274},
  address = {Dae-jong, Korea}
}

@INPROCEEDINGS{FSM-ESANN2001,
  author = {W. Duch and R. Adamczak and G.H.F. Diercksen},
  title = {Constructive density estimation network based on several different
	separable transfer functions},
  booktitle = {9th European Symposium on Artificial Neural Networks},
  year = {2001},
  address = {Bruges, Belgium},
  month = {Apr}
}

@ARTICLE{SBMneural00,
  author = {W.~ Duch and R.~Adamczak and G.H.F.~Diercksen},
  title = {Classification, Association and Pattern Completion using Neural Similarity
	Based Methods},
  journal = {Applied Mathematics and Computer Science},
  year = {2000},
  volume = {10},
  pages = {101--120}
}

@INPROCEEDINGS{D-MLP,
  author = {W. Duch and R. Adamczak and G. H. F. Diercksen},
  title = {Distance-based multilayer perceptrons},
  booktitle = {International Conference on Computational Intelligence for Modelling
	Control and Automation},
  year = {1999},
  editor = {M. Mohammadian},
  pages = {75--80},
  address = {Amsterdam, The Netherlands},
  publisher = {IOS Press}
}

@ARTICLE{Duch98,
  author = {W. Duch and R. Adamczak and G. H. F. Diercksen},
  title = {Neural networks in non-euclidean spaces},
  journal = {Neural Processing Letters},
  year = {1999},
  volume = {10},
  pages = {201--210}
}

@ARTICLE{DuchTNN01,
  author = {W.~ Duch and R.~Adamczak and K.~Gr{\c a}bczewski},
  title = {A new methodology of extraction, optimization and application of
	crisp and fuzzy logical rules},
  journal = {IEEE Transactions on Neural Networks},
  year = {2001},
  volume = {12},
  pages = {277--306}
}

@INPROCEEDINGS{Duchstatsig,
  author = {W. Duch and R. Adamczak and K. Gr{\c a}bczewski},
  title = {Methodology of extraction, optimization and application of logical
	rules},
  booktitle = {Intelligent Information Systems VIII},
  year = {1999},
  pages = {22--31},
  address = {Ustro\'n, Poland}
}

@ARTICLE{MLP2LN98,
  author = {W. Duch and R. Adamczak and K. Gr{\c a}bczewski},
  title = {Extraction of logical rules from backpropagation networks},
  journal = {Neural Processing Letters},
  year = {1998},
  volume = {7},
  pages = {1--9}
}

@INPROCEEDINGS{DuchAG97b,
  author = {W. Duch and R. Adamczak and K. Gr{\c a}bczewski},
  title = {Solving Engineering Problems with Neural Networks},
  booktitle = {Proceedings of the International Conference EANN'97},
  year = {1997},
  pages = {109--114},
  month = {Jun}
}

@INPROCEEDINGS{DuchAG97c,
  author = {W. Duch and R. Adamczak and K. Gr{\c a}bczewski},
  title = {Extraction of crisp logical rules using constrained backpropagation
	networks},
  booktitle = {International Conference on Artificial Neural Networks (ICANN'97)},
  year = {1997},
  pages = {2384--2389},
  month = {Jun}
}

@INPROCEEDINGS{DuchAGMed,
  author = {W. Duch and R. Adamczak and K. Gr{\c a}bczewski},
  title = {Extraction of crisp logical rules from medical datasets},
  booktitle = {Third Conference on Neural Networks and Their Applications},
  year = {1997},
  pages = {707--712},
  address = {Kule, Poland},
  month = oct
}

@INPROCEEDINGS{DuchHouston97,
  author = {W. Duch and R. Adamczak and K. Gr{\c a}bczewski},
  title = {Extraction of crisp logical rules using constrained backpropagation
	networks},
  booktitle = {International Conference on Artificial Neural Networks},
  year = {1997},
  pages = {2384--2389},
  address = {Houston},
  month = {June}
}

@INPROCEEDINGS{DuchAdamczakGrabczewski96,
  author = {W. Duch and R. Adamczak and K. Gr{\c a}bczewski},
  title = {Extraction of logical rules from training data using backpropagation
	networks},
  booktitle = {First Polish Conference on Theory and Applications of Artificial
	Intelligence},
  year = {1996}
}

@INPROCEEDINGS{DuchAdamczakGrabczewski96a,
  author = {W. Duch and R. Adamczak and K. Gr{\c a}bczewski},
  title = {Extraction of logical rules from training data using backpropagation
	networks},
  booktitle = {The 1st Online Workshop on Soft Computing},
  year = {1996}
}

@ARTICLE{DuchAGZ98HybridB,
  author = {W. Duch and R. Adamczak and K. Gr{\c a}bczewski and G. \.{Z}al},
  title = {Hybrid neural-global minimization method of logical rule extraction},
  journal = {Journal of Advanced Computational Intelligence},
  year = {1999},
  volume = {3},
  pages = {348--356}
}

@INPROCEEDINGS{DuchAGZ98Hybrid,
  author = {W. Duch and R. Adamczak and K. Gr{\c a}bczewski and G. {\.Z}al},
  title = {Hybrid neural-global minimization logical rule extraction method
	for medical diagnosis support},
  booktitle = {Intelligent Information Systems VII},
  year = {1998},
  pages = {85--94},
  address = {Malbork, Poland},
  month = {June}
}

@INPROCEEDINGS{DuchAGIU97,
  author = {W. Duch and R. Adamczak and K Gr{\c a}bczewski and M. Ishikawa and
	H. Ueda},
  title = {Extraction of crisp logical rules using constrained backpropagation
	networks - comparison of two new approaches},
  booktitle = {Proceedings of the European Symposium on Artificial Neural Networks
	(ESANN'97)},
  year = {1997},
  pages = {109--114},
  month = {Apr}
}

@CONFERENCE{Duchelimin00,
  author = {W. Duch and R. Adamczak and Y. Hayashi},
  title = {Eliminators and classifiers},
  booktitle = {7th International Conference on Neural Information Processing (ICONIP)},
  year = {2000},
  editor = {Soo-Young Lee},
  pages = {1029-1034},
  publisher = {Dae-jong, Korea},
  owner = {Duch},
  timestamp = {2009.06.07}
}

@INPROCEEDINGS{DuchAdamczakJankowski96,
  author = {W. Duch and R. Adamczak and N. Jankowski},
  title = {Improved Memory-Based Classification},
  booktitle = {Proceedings of the International Conference EANN '96},
  year = {1996},
  editor = {A. B. Bulsari and S. Kallio and D. Tsaptsinos},
  pages = {447--450},
  month = {Jun}
}

@TECHREPORT{DuchAJ97a,
  author = {W. Duch and R. Adamczak and N. Jankowski},
  title = {New developments in the Feature Space Mapping model},
  institution = {Computational Intelligence Lab, DCM NCU},
  year = {1997},
  number = {CIL-KMK-2/97},
  address = {Toru\'n, Poland},
  month = {Oct},
  note = {(long version)}
}

@INPROCEEDINGS{DuchAJ97b,
  author = {W. Duch and R. Adamczak and N. Jankowski},
  title = {Initialization of adaptive parameters in density networks},
  booktitle = {Third Conference on Neural Networks and Their Applications},
  year = {1997},
  pages = {99--104},
  address = {Kule, Poland},
  month = {Oct}
}

@INPROCEEDINGS{DuchAJ97c,
  author = {W. Duch and R. Adamczak and N. Jankowski},
  title = {Initialization and optimization of multilayered perceptrons},
  booktitle = {Third Conference on Neural Networks and Their Applications},
  year = {1997},
  pages = {105--110},
  address = {Kule, Poland},
  month = {Oct}
}

@INCOLLECTION{BiesiadaD05,
  author = {W.~Duch and J.~Biesiada},
  title = {Feature Selection for High-Dimensional Data: A Kolmogorov-Smirnov
	Correlation-Based Filter Solution},
  booktitle = {Advances in Soft Computing},
  publisher = {Springer},
  year = {2005},
  editor = {M. Kurzynski and E. Puchala and M. Wozniak and A. Zolnierek},
  pages = {95--104}
}

@INCOLLECTION{DuchBWGG02,
  author = {W.~Duch and J. Biesiada and T. Winiarski and K. Grudzinski and K.	Gr{\c a}bczewski},
  title = {Feature selection based on information theory filters and feature
	elimination wrapper methods},
  publisher = {Physica Verlag, Springer},
  year = {2002},
  editor = {L. Rutkowski and J. Kacprzyk},
  pages = {173--176},
  address = {New York},
  optseries = {Advances in Soft Computing}
}

@ARTICLE{ProtRules11,
  author = {W. Duch and M. Blachnik},
  title = {{LVQ} algorithm with instance weighting for generation of prototype-based
	rules.},
  journal = {Neural Networks},
  year = {2011},
  volume = {24},
  pages = {824–830}
}

@ARTICLE{DuchProto04,
  author = {W.~Duch and M.~Blachnik},
  title = {Fuzzy rule-based systems derived from similarity to prototypes},
  journal = {Lecture Notes in Computer Science},
  year = {2004},
  volume = {3316},
  pages = {912--917}
}

@ARTICLE{DuchFSM95,
  author = {W. Duch and G. H. F. Diercksen},
  title = {Feature Space Mapping as a Universal Adaptive System},
  journal = {Computer Physics Communications},
  year = {1995},
  volume = {87},
  pages = {341--371}
}

@INPROCEEDINGS{DuchCogN09,
  author = {W. Duch and K. Dobosz},
  title = {Attractors in Neurodynamical Systems.},
  booktitle = {Cognitive Neurodynamics},
  year = {2009},
  publisher = {(submitted)},
  owner = {Duch},
  timestamp = {2009.07.07}
}

@INCOLLECTION{DuchHetero02,
  author = {W.~Duch and K. Gr{\c a}bczewski},
  title = {Heterogeneous adaptive systems},
  booktitle = {IEEE World Congress on Computational Intelligence},
  publisher = {IEEE Press},
  year = {2002},
  pages = {524--529},
  address = {Honolulu},
  month = {May}
}

@INCOLLECTION{DuchMeta02,
  author = {W.~Duch and K. Grudzi\'nski},
  title = {Meta-learning via search combined with parameter optimization},
  booktitle = {Advances in Soft Computing},
  publisher = {Physica Verlag, Springer},
  year = {2002},
  editor = {L. Rutkowski and J. Kacprzyk},
  pages = {13--22},
  address = {New York}
}

@INPROCEEDINGS{DuchGrules01,
  author = {W.~Duch and K. Grudzi\'nski},
  title = {Prototype based rules - new way to understand the data},
  booktitle = {IEEE International Joint Conference on Neural Networks},
  year = {2001},
  pages = {1858--1863},
  address = {Washington D.C},
  publisher = {IEEE Press}
}

@INPROCEEDINGS{DuchMeta01,
  author = {W.~Duch and K. Grudzi\'nski},
  title = {Meta-learning: searching in the model space},
  booktitle = {Proceedings of the International Conference on Neural Information
	Processing},
  year = {2001},
  pages = {235--240},
  address = {Shanghai}
}

@INPROCEEDINGS{DuchGrudzinski99,
  author = {W. Duch and K. Grudzi\'nski},
  title = {The weighted k-NN with selection of features and its neural realization},
  booktitle = {4th Conference on Neural Networks and Their Applications},
  year = {1999},
  pages = {191--196},
  address = {Zakopane, Poland},
  month = {May}
}

@INPROCEEDINGS{DuchIJCNN99,
  author = {W.~Duch and K. Grudzi\'nski},
  title = {Search and global minimization in similarity-based methods},
  booktitle = {International Joint Conference on Neural Networks},
  year = {1999},
  pages = {Paper 742},
  address = {Washington D.C.},
  publisher = {IEEE Press}
}

@INPROCEEDINGS{DuchMinimal-distance98,
  author = {W. Duch and K. Grudzinski and G. H. F. Diercksen},
  title = {Minimal distance neural methods},
  booktitle = {World Congress of Computational Intelligence},
  year = {1998},
  pages = {1299--1304},
  address = {Anchorage, Alaska},
  month = {May}
}

@INPROCEEDINGS{DuchCUC03,
  author = {W.~Duch and L.~Itert},
  title = {Committees of Undemocratic Competent Models},
  booktitle = {Proc. of Int. Conf. on Artificial Neural Networks (ICANN), Istanbul},
  year = {2003},
  editor = {L. Rutkowski and J. Kacprzyk},
  pages = {33--36},
  optseries = {Advances in Soft Computing}
}

@INCOLLECTION{duchaposteriori02,
  author = {W.~Duch and L.~Itert},
  title = {A posteriori corrections to classification methods},
  booktitle = {Neural Networks and Soft Computing},
  publisher = {Physica Verlag, Springer},
  year = {2002},
  editor = {L. Rutkowski and J. Kacprzyk},
  pages = {406-411},
  address = {New York},
  optseries = {Advances in Soft Computing}
}

@INCOLLECTION{DuchCUC02,
  author = {W.~Duch and L.~Itert},
  title = {Competent undemocratic committees},
  booktitle = {Neural Networks and Soft Computing},
  publisher = {Physica Verlag, Springer},
  year = {2002},
  editor = {L. Rutkowski and J. Kacprzyk},
  pages = {412-417},
  optseries = {Advances in Soft Computing}
}

@INPROCEEDINGS{DuchESANN1,
  author = {W. Duch and N. Jankowski},
  title = {Transfer functions: hidden possibilities for better neural networks},
  booktitle = {9th European Symposium on Artificial Neural Networks},
  year = {2001},
  pages = {81--94},
  address = {Brusells, Belgium},
  publisher = {De-facto publications}
}

@INPROCEEDINGS{transfer00,
  author = {W.~Duch and N.~Jankowski},
  title = {Taxonomy of neural transfer functions},
  booktitle = {International Joint Conference on Neural Networks},
  year = {2000},
  volume = {III},
  pages = {477--484},
  address = {Como, Italy},
  publisher = {IEEE Press}
}

@ARTICLE{DuchJankowskiNCS99,
  author = {W. Duch and N. Jankowski},
  title = {Survey of Neural Transfer Functions},
  journal = {Neural Computing Surveys},
  year = {1999},
  volume = {2},
  pages = {163-213}
}

@ARTICLE{DuchJankowskiAMCS,
  author = {W. Duch and N. Jankowski},
  title = {New neural transfer functions},
  journal = {Journal of Applied Mathematics and Computer Science},
  year = {1997},
  volume = {7},
  pages = {639--658},
  number = {3}
}

@INPROCEEDINGS{DuchJankowski96,
  author = {W. Duch and N. Jankowski},
  title = {Bi-radial Transfer Functions},
  booktitle = {Second Conference on Neural Networks and Their Applications},
  year = {1996},
  pages = {131--137},
  address = {Szczyrk, Poland},
  month = {May}
}

@TECHREPORT{DuchJankowskiTR96,
  author = {W. Duch and N. Jankowski},
  title = {Bi-radial transfer functions},
  institution = {Department of Computer Methods, Nicholas Copernicus University },
  year = {1995},
  number = {UMK-KMK-TR 1/96},
  address = {Toru\'n, Poland}
}

@INPROCEEDINGS{DuchJankowski94,
  author = {W. Duch and N. Jankowski},
  title = {Complex systems, Information Theory and Neural Networks},
  booktitle = {First Polish Conference on Neural Networks and Their Applications},
  year = {1994},
  pages = {224--230},
  address = {Kule, Poland},
  month = {Apr}
}

@TECHREPORT{GM,
  author = {W. Duch and N. Jankowski and K. Gr{\c a}bczewski and A. Naud and
	R. Adamczak},
  title = {Ghostminer data mining software},
  institution = {Department of Informatics, Nicolaus Copernicus University},
  year = {2000},
  note = {http://www.fqspl.com.pl/ghostminer/}
}

@INPROCEEDINGS{DuchJNAFSM95,
  author = {W. Duch and N. Jankowski and A. Naud and R. Adamczak},
  title = {Feature Space Mapping: a neurofuzzy network for system identification},
  booktitle = {Proceedings of the European Symposium on Artificial Neural Networks},
  year = {1995},
  pages = {221--224},
  address = {Helsinki},
  month = {Aug}
}

@BOOK{DuchKGA99,
  title = {Metody uczenia maszynowego w analizie danych psychometrycznych. Zastosowanie
	do wielowymiarowego kwestionariusza osobowo\'sci MMPI--WISKAD},
  publisher = {Computational Intelligence Lab, DCM NCU},
  year = {1999},
  author = {W. Duch and T. Kucharski and J. Gomu{\l}a and R. Adamczak},
  address = {Toru\'n, Poland}
}

@INCOLLECTION{duchquo04,
  author = {W. Duch and J. Mandziuk},
  title = {Quo Vadis Computational Intelligence?},
  booktitle = {Machine Intelligence: Quo Vadis?},
  publisher = {World Scientific, Advances in Fuzzy Systems -- Applications and Theory},
  year = {2004},
  editor = {P. Sincak and J. Vascak and K. Hirota},
  volume = {21},
  pages = {3--28}
}

@ARTICLE{aRPM09,
  author = {W. Duch and T. Maszczyk},
  title = {Almost Random Projection Machine},
  journal = {Lecture Notes in Computer Science},
  year = {2009},
  volume = {5768},
  pages = {789-798},
  owner = {Duch},
  timestamp = {2009.05.27}
}

@ARTICLE{ULM09,
  author = {W. Duch and T. Maszczyk},
  title = {Universal Learning Machines},
  journal = {Lecture Notes in Computer Science},
  year = {2009},
  volume = {5864},
  pages = {206--215},
  owner = {Duch},
  timestamp = {2009.07.7}
}

@ARTICLE{DuchMPPJ08,
  author = {Duch, W. and Matykiewicz, P. and Pestian, J.},
  title = {Neurolinguistic Approach to Natural Language Processing with Applications
	to Medical Text Analysis.},
  journal = {Neural Networks},
  year = {2008},
  volume = { 21(10)},
  pages = {1500-1510},
  owner = {Duch},
  timestamp = {2008.11.06}
}

@ARTICLE{DuchMat07,
  author = {W. Duch and P. Matykiewicz and J. Pestian},
  title = {Towards Understanding of Natural Language: Neurocognitive Inspirations},
  journal = {Lecture Notes in Computer Science},
  year = {2007},
  volume = {4669},
  pages = {953–-962}
}

@INPROCEEDINGS{Naud96,
  author = {W. Duch and A. Naud},
  title = {Multidimensional scaling and Kohonen's Self-Organizing Maps},
  booktitle = {Proc. of the 2nd Conference "Neural Networks and their Applications",
	Szczyrk, Poland},
  year = {1996},
  volume = {I},
  pages = {138-143}
}

@INPROCEEDINGS{DuchAJNGK96,
  author = {W. Duch and Adamczak Rafa\l{} and N. Jankowski and Antoine Naud and
	Jerzy Gomu\l{}a and Tomasz Kucharski},
  title = {Neural-based classification and visualization methods with applications
	to psychometry},
  booktitle = {34th International Seminar on Statistics and Clinical Practice},
  year = {1996},
  address = {Warszawa}
}

@ARTICLE{duchieee04,
  author = {W.~Duch and R.~Setiono and J.~Zurada},
  title = {Computational intelligence methods for understanding of data},
  journal = {Proceedings of the IEEE},
  year = {2004},
  volume = {92},
  pages = {771--805},
  number = {5}
}

@ARTICLE{DuchDrug07,
  author = {Duch, W. and Swaminathan, K. and Meller, J.},
  title = {Computational Intelligence Approaches to Rational Drug Design and
	Discovery},
  journal = {Current Pharmaceutical Design},
  year = {2007},
  volume = {13(14)},
  pages = {1497-1508},
  owner = {Duch},
  timestamp = {2009.07.10}
}

@INPROCEEDINGS{DuchSemWeb08,
  author = {Duch, W. and Szymański, J.},
  title = {Semantic Web: Asking the Right Questions},
  booktitle = {Series of Information and Management Sciences},
  year = {2008},
  editor = {Gen, M. and Zhao, X. and Gao, J.},
  pages = {456-463},
  publisher = {California Polytechnic State University, CA, USA},
  owner = {wd},
  timestamp = {2008.08.30}
}

@INPROCEEDINGS{DuchBiesiada03,
  author = {W.~Duch and T.~Winiarski and J.~Biesiada and A.~Kachel},
  title = {Feature Ranking, Selection and Discretization},
  booktitle = {Proceedings of Int. Conf. on Artificial Neural Networks (ICANN)},
  year = {2003},
  pages = {251-254},
  address = {Istanbul},
  publisher = {Bogazici University Press}
}

@ARTICLE{DuchMP07,
  author = {Duch W, Pilichowski M},
  title = {Experiments with computational creativity},
  journal = {Neural Information Processing - Letters and Reviews},
  year = {2007},
  volume = {11(4-6)},
  pages = {123-133},
  owner = {Duch},
  timestamp = {2008.11.06}
}

@ARTICLE{Forest02,
  author = {K.~Gr{\c a}bczewski and W.~Duch},
  title = {Forests of decision trees},
  journal = {Neural Networks and Soft Computing, Advances in Soft Computing},
  year = {2002},
  pages = {602--607},
  publisher = {Physica Verlag, Springer}
}

@ARTICLE{Heteroforest02,
  author = {K.~Gr{\c a}bczewski and W.~Duch},
  title = {Heterogenous forests of decision trees},
  journal = {Springer Lecture Notes in Computer Science},
  year = {2002},
  volume = {2415},
  pages = {504--509},
  publisher = {Physica Verlag, Springer}
}

@INPROCEEDINGS{SSV00,
  author = {K.~Gr{\c a}bczewski and W.~Duch},
  title = {The separability of split value criterion},
  booktitle = {Proceedings of the 5th Conf. on Neural Networks and Soft Computing},
  year = {2000},
  pages = {201--208},
  address = {Zakopane, Poland},
  publisher = {Polish Neural Network Society}
}

@INPROCEEDINGS{GrabczewskiZakopane99,
  author = {K. Gr{\c a}bczewski and W. Duch},
  title = {A general purpose separability criterion for classification systems},
  booktitle = {4th Conference on Neural Networks and Their Applications},
  year = {1999},
  pages = {203--208},
  address = {Zakopane, Poland},
  month = {May}
}

@ARTICLE{GrabczewskiJ08,
  author = {Krzysztof Gr{\c a}bczewski and Norbert Jankowski},
  title = {Meta-learning with Machine Generators and Complexity Controlled Exploration},
  journal = {Lecture Notes in Artificial Intelligence},
  year = {2008},
  volume = {5097},
  pages = {545-555}
}

@INPROCEEDINGS{GrabczewskiJ07,
  author = {Krzysztof Gr{\c a}bczewski and Norbert Jankowski},
  title = {Versatile and Efficient Meta-Learning Architecture: Knowledge Representation
	and Management in Computational Intelligence},
  booktitle = {IEEE Symposium on Computational Intelligence in Data Mining, IEEE
	Press},
  year = {2007},
  pages = {51-58}
}

@INBOOK{Grochowski09,
  pages = {49-70},
  title = {Constructive Neural Network Algorithms that Solve Highly Non-Separable
	Problems},
  publisher = {Springer},
  year = {2010},
  editor = {Franco L, Elizondo D.A, Jerez J.M.},
  author = {M. Grochowski and W. Duch},
  volume = {258},
  series = {Studies in Computational Intelligence},
  owner = {Duch},
  timestamp = {2009.03.20}
}

@ARTICLE{GrochowskiD11,
  author = {M. Grochowski and W. Duch},
  title = {Fast Projection Pursuit Based on Quality of Projected Clusters},
  journal = {Lecture Notes in Computer Science},
  year = {2011},
  volume = {6594},
  pages = {89-97}
}

@ARTICLE{Grochowski09a,
  author = {M. Grochowski and W. Duch},
  title = {Constrained Learning Vector Quantization or Relaxed k-Separability},
  journal = {Lecture Notes in Computer Science},
  year = {2009},
  volume = {5768},
  pages = {151-160},
  owner = {Duch},
  timestamp = {2009.05.31}
}

@ARTICLE{GrochowskiD08,
  author = {M. Grochowski and W. Duch},
  title = {{A Comparison of Methods for Learning of Highly Non-Separable Problems}},
  journal = {Lecture Notes in Computer Science},
  year = {2008},
  volume = {5097},
  pages = {566--577}
}

@ARTICLE{GrochowskiD08a,
  author = {M. Grochowski and W. Duch},
  title = {{Projection Pursuit Constructive Neural Networks Based on Quality
	of Projected Clusters}},
  journal = {Lecture Notes in Computer Science},
  year = {2008},
  volume = {5164},
  pages = {754--762}
}

@ARTICLE{GrochowskiD07,
  author = {M. Grochowski and W. Duch},
  title = {{Learning highly non-separable Boolean functions using Constructive
	Feedforward Neural Network}},
  journal = {Lecture Notes in Computer Science},
  year = {2007},
  volume = {4668},
  pages = {180--189}
}

@ARTICLE{Grochowski04,
  author = {M.~Grochowski and N.~Jankowski},
  title = {Comparison of Instance Selection Algorithms. II. Results and Comments},
  journal = {Lecture Notes in Computer Science},
  year = {2004},
  volume = {3070},
  pages = {580--585}
}

@INCOLLECTION{GrudzinskiIIS01,
  author = {K. Grudzi\'nski and W.~Duch},
  title = {Ensembles of Similarity-Based Models},
  booktitle = {Advances in Soft Computing},
  publisher = {Physica Verlag, Springer},
  year = {2001},
  pages = {75--85},
  address = {New York}
}

@ARTICLE{Grudzinski08_EkP_IIS,
  author = {K.~Grudzinski},
  title = {E$k$P: A Fast Minimization--Based Prototype Selection Algorithm},
  journal = {Control and Cybernetics},
  year = {submitted}
}

@ARTICLE{Grudzinski09_EkP_CCB,
  author = {K.~Grudzinski},
  title = {Selection of Prototypes with the E$k$P System},
  journal = {Control and Cybernetics},
  year = {submitted}
}

@INBOOK{Grudzinski06_Proto_Committees,
  chapter = {Prototype Based Committees},
  pages = {237--244},
  title = {Challenging Problems of Science: Computer Science},
  publisher = {EXIT, Warsaw},
  year = {2006},
  author = {K.~Grudzinski}
}

@ARTICLE{Grudzinski04_PM_M,
  author = {K.~Grudzinski},
  title = {SBL--PM-M: A System for Partial Memory Learning},
  journal = {Lecture Notes in Computer Science},
  year = {2004},
  volume = {3070},
  pages = {586--591}
}

@ARTICLE{Haffey2009,
  author = {Wendy D Haffey and Olga Mikhaylova and Jarek Meller and Ying Yi and
	Kenneth D Greis and Maria F Czyzyk-Krzeska},
  title = {iTRAQ proteomic identification of pVHL-dependent and -independent
	targets of Egln1 prolyl hydroxylase knockdown in renal carcinoma
	cells.},
  journal = {Advances in Enzyme Regulation},
  year = {2009},
  volume = {49},
  pages = {121--132},
  number = {1},
  doi = {10.1016/j.advenzreg.2008.12.004},
  institution = {Department of Cancer and Cell Biology, University of Cincinnati College
	of Medicine, Cincinnati, OH 45237-0505, USA.},
  keywords = {Amino Acid Sequence; Animals; Carcinoma, Renal Cell; Cell Line; Gene
	Expression Regulation, Neoplastic; Gene Knockdown Techniques; Humans;
	Isoenzymes; Molecular Sequence Data; Peptides; Procollagen-Proline
	Dioxygenase; Protein Subunits; Proteomics; RNA Polymerase II; Spectrometry,
	Mass, Matrix-Assisted Laser Desorption-Ionization; Von Hippel-Lindau
	Tumor Suppressor Protein},
  owner = {jarek},
  pii = {S0065-2571(08)00055-1},
  pmid = {19159641},
  timestamp = {2010.01.13},
  url = {http://dx.doi.org/10.1016/j.advenzreg.2008.12.004}
}

@INCOLLECTION{Itert07,
  author = {L. Itert and W. Duch and J. Pestian},
  title = {Influence of a priori Knowledge on Medical Document Categorization},
  booktitle = {IEEE Symposium on Computational Intelligence in Data Mining},
  publisher = {IEEE Press},
  year = {2007},
  pages = {163--170}
}

@ARTICLE{Itert05,
  author = {L. Itert and W. Duch and J. Pestian},
  title = {Medical document categorization using a priori knowledge},
  journal = {Lecture Notes in Computer Science},
  year = {2005},
  volume = {3696},
  pages = {641-646}
}

@INPROCEEDINGS{JankowskiZakopane:95,
  author = {N. Jankowski},
  title = {Applications of Levin's Universal Optimal Search Algorithm},
  booktitle = {System Modeling Control'95},
  year = {1995},
  editor = {E. K{\c a}cki},
  volume = {3},
  pages = {34--40},
  address = {\L\'od\'z, Poland},
  month = {may},
  publisher = {Polish Society of Medical Informatics},
  optorganization = {Institute of Computer Science Technical University of \L\'od\'z, Polish
	Cybernetical Society, Polish Society of Computer Simulation, Polish
	Society of Medical Informatics}
}

@INPROCEEDINGS{jankowski00,
  author = {Norbert Jankowski},
  title = {Data Regularization},
  booktitle = {Neural Networks and Soft Computing},
  year = {2000},
  editor = {L. Rutkowski and R. Tadeusiewicz},
  pages = {209--214}
}

@INCOLLECTION{JankowskiBiocyb2000,
  author = {N. Jankowski},
  title = {Ontogeniczne Sieci Neuronowe},
  booktitle = {Sieci Neuronowe},
  year = {2000},
  note = {AOW 2000}
}

@TECHREPORT{Jankowski99,
  author = {N. Jankowski},
  title = {Flexible Transfer Functions with Ontogenic Neural},
  institution = {Computational Intelligence Lab, DCM NCU},
  year = {1999},
  address = {Toru\'n, Poland}
}

@INPROCEEDINGS{JankowskiACAI99,
  author = {N. Jankowski},
  title = {Approximation and Classification in Medicine with IncNet Neural Networks},
  booktitle = {Machine Learning and Applications. Workshop on Machine Learning in
	Medical Applications},
  year = {1999},
  pages = {53--58},
  address = {Greece},
  month = {Jul}
}

@PHDTHESIS{JankowskiPhD,
  author = {N. Jankowski},
  title = {Ontogeniczne sieci neuronowe w zastosowaniu do klasyfikacji danych
	medycznych},
  school = {Katedra Metod Komputerowych, Uniwersytet Miko\l{}aja Kopernika},
  year = {1999},
  address = {Toru\'n, Polska}
}

@PHDTHESIS{JankowskiPhD-EN,
  author = {N. Jankowski},
  title = {Ontogenic neural networks and their applications to classification
	of medical data},
  school = {Department of Computer Methods, Nicolaus Copernicus University},
  year = {1999},
  address = {Toru\'n, Poland}
}

@INPROCEEDINGS{JankowskiZakopane99,
  author = {N. Jankowski},
  title = {Approximation with {RBF}-type Neural Networks using flexible local
	and semi-local transfer functions},
  booktitle = {4th Conference on Neural Networks and Their Applications},
  year = {1999},
  pages = {77--82},
  address = {Zakopane, Poland},
  month = {May}
}

@INPROCEEDINGS{JankowskiBoston98,
  author = {N. Jankowski},
  title = {Controlling the Structure of Neural Networks that Grow and Shrink},
  booktitle = {Second International Conference on Cognitive and Neural Systems},
  year = {1998},
  address = {Boston, USA},
  month = {May}
}

@TECHREPORT{JankowskiMatlab,
  author = {N. Jankowski},
  title = {MatLab -- plusy kontra minusy},
  institution = {Department of Computer Methods, Nicolas Copernicus University in
	Torun, Poland},
  year = {1995}
}

@INPROCEEDINGS{JankowskiDuchESANN2001,
  author = {N. Jankowski and W. Duch},
  title = {Optimal transfer function neural networks},
  booktitle = {9th European Symposium on Artificial Neural Networks},
  year = {2001},
  pages = {101--106},
  address = {Bruges, Belgium},
  publisher = {De-facto publications}
}

@TECHREPORT{Intemi,
  author = {N. Jankowski and K. Gr{\c a}bczewski},
  title = {Intemi: inteligen miner data mining software},
  institution = {Department of Informatics, Nicolaus Copernicus University},
  year = {2011}
}

@INBOOK{MetaJG11,
  chapter = {Universal Meta-learning Architecture and Algorithms},
  pages = {1-76},
  title = {Meta-learning in Computational Intelligence.},
  publisher = {Springer},
  year = {2011},
  editor = {N. Jankowski and W. Duch and K. Grąbczewski},
  author = {N. Jankowski and K. Grąbczewski},
  volume = {358},
  series = {Studies in Computational Intelligence}
}

@INCOLLECTION{Jankowski07,
  author = {N. Jankowski and K. Grąbczewski},
  title = {Handwritten digit recognition -- road to contest victory},
  booktitle = {IEEE Symposium on Computational Intelligence in Data Mining},
  publisher = {IEEE Press},
  year = {2007},
  pages = {491--498}
}

@ARTICLE{Jankowski04,
  author = {N.~Jankowski and M.~Grochowski},
  title = {Comparison of Instance Selection Algorithms. I. Algorithms Survey},
  journal = {Lecture Notes in Computer Science},
  year = {2004},
  volume = {3070},
  pages = {598--603}
}

@INPROCEEDINGS{JankowskiKadirkamanathan97,
  author = {N. Jankowski and V. Kadirkamanathan},
  title = {Statistical Control of Growing and Pruning in {RBF}-like Neural Networks},
  booktitle = {Third Conference on Neural Networks and Their Applications},
  year = {1997},
  pages = {663--670},
  address = {Kule, Poland},
  month = oct
}

@INPROCEEDINGS{JankowskiKadirkamanathan97b,
  author = {N. Jankowski and V. Kadirkamanathan},
  title = {Statistical Control of {RBF}-like Networks for Classification},
  booktitle = {7th International Conference on Artificial Neural Networks},
  year = {1997},
  pages = {385--390},
  address = {Lausanne, Switzerland},
  month = oct,
  publisher = {Springer-Verlag}
}

@ARTICLE{Infosel:Kachel10,
  author = {A. Kachel and W. Duch W and M. Blachnik nad J. Biesiada},
  title = {Infosel++: Information Based Feature Selection C++ Library.},
  journal = {Lecture Notes in Computer Science},
  year = {2010},
  volume = {(in print)},
  owner = {Duch},
  timestamp = {2010.02.06}
}

@INPROCEEDINGS{KadirkamanathanJankowskiNIPS97,
  author = {V. Kadirkamanathan and N. Jankowski},
  title = {On-line Control of Growing and Pruning with {RBF}-like Neural Networks},
  booktitle = {NIPS'97},
  year = {1997},
  editor = {W. Gerstner and A. Germond and M. Hasler and J. Nicoud},
  address = {Denver, USA}
}

@ARTICLE{Kordos06,
  author = {M. Kordos and W. Duch},
  title = {{Variable Step Search MLP Training Method}},
  journal = {International Journal of Information Technology and Intelligent Computing},
  year = {2006},
  volume = {1},
  pages = {45--56}
}

@INPROCEEDINGS{SFM10,
  author = {T. Maszczyk and W. Duch},
  title = {Support Feature Machines: Support Vectors are not enough.},
  booktitle = {World Congress on Computational Intelligence},
  year = {2010},
  pages = {3852-3859},
  publisher = {IEEE Press},
  owner = {Duch},
  timestamp = {2009.07.07}
}

@ARTICLE{MaszczykDuchEntropy08,
  author = {T. Maszczyk and W. Duch},
  title = {Comparison of Shannon, Renyi and Tsallis Entropy used in Decision
	Trees.},
  journal = {Lecture Notes in Computer Science},
  year = {2008},
  volume = {5097},
  pages = {643-651},
  owner = {Duch},
  timestamp = {2008.12.08}
}

@ARTICLE{MaszczykDuchSVM08,
  author = {T. Maszczyk and W. Duch},
  title = {Support Vector Machines for visualization and dimensionality reduction.},
  journal = {Lecture Notes in Computer Science},
  year = {2008},
  volume = {5163},
  pages = {346-356},
  owner = {Duch},
  timestamp = {2008.12.08}
}

@INBOOK{Meta:Maszczyk10,
  chapter = {Discovering Data Structures using Meta-learning, Visualization and
	Constructive Neural Networks},
  pages = {467-484},
  title = {Meta-learning in Computational Intelligence.},
  publisher = {Springer},
  year = {2010},
  editor = {J. Koronacki and Z.W. Ras and S.T. Wierzchon and J. Kacprzyk},
  author = {T. Maszczyk and M. Grochowski and W. Duch},
  volume = {262},
  series = {Studies in Computational Intelligence, Advances in Machine Learning
	II},
  owner = {Duch},
  timestamp = {2010.02.07}
}

@ARTICLE{Matykiewicz06,
  author = {P. Matykiewicz and W. Duch and J. Pestian},
  title = {Nonambiguous Concept Mapping in Medical Domain},
  journal = {Lecture Notes in Artificial Intelligence},
  year = {2006},
  volume = {4029},
  pages = {941--950}
}

@INPROCEEDINGS{Matyk09,
  author = {Pawe{\l} Matykiewicz and W{\l}odzis{\l}aw Duch and Paul M. Zender
	and Keith A. Crutcher and John P. Pestian},
  title = {Neurocognitive Approach to Clustering of PubMed Query Results},
  booktitle = {Advances in Neuro-Information Processing},
  year = {2009},
  editor = {Mario K\"{o}ppen and Nikola Kasabov and George Coghill},
  volume = {5507},
  series = {Lecture Notes in Computer Science},
  pages = {70--79},
  publisher = {Springer},
  isbn = {978-3-642-03039-0},
  location = {Heidelberg}
}

@ARTICLE{matykiewicz2006ucm,
  author = {Matykiewicz, P. and Pestian, J. and Duch, W. and Johnson, N.},
  title = {{Unambiguous Concept Mapping in Radiology Reports: Graphs of Consistent
	Concepts}},
  journal = {AMIA Annual Symposium Proceedings},
  year = {2006},
  volume = {2006},
  pages = {1024-1031},
  publisher = {American Medical Informatics Association}
}

@ARTICLE{Mikhaylova2008,
  author = {Olga Mikhaylova and Monika L Ignacak and Teresa J Barankiewicz and
	Svetlana V Harbaugh and Ying Yi and Patrick H Maxwell and Martin
	Schneider and Katie Van Geyte and Peter Carmeliet and Monica P Revelo
	and Michael Wyder and Kenneth D Greis and Jarek Meller and Maria
	F Czyzyk-Krzeska},
  title = {The von Hippel-Lindau tumor suppressor protein and Egl-9-Type proline
	hydroxylases regulate the large subunit of RNA polymerase II in response
	to oxidative stress.},
  journal = {Mol Cell Biol},
  year = {2008},
  volume = {28},
  pages = {2701--2717},
  number = {8},
  month = {Apr},
  abstract = {Human renal clear cell carcinoma (RCC) is frequently associated with
	loss of the von Hippel-Lindau (VHL) tumor suppressor (pVHL), which
	inhibits ubiquitylation and degradation of the alpha subunits of
	hypoxia-inducible transcription factor. pVHL also ubiquitylates the
	large subunit of RNA polymerase II, Rpb1, phosphorylated on serine
	5 (Ser5) within the C-terminal domain (CTD). A hydroxylated proline
	1465 within an LXXLAP motif located N-terminal to the CTD allows
	the interaction of Rpb1 with pVHL. Here we report that in RCC cells,
	pVHL regulates expression of Rpb1 and is necessary for low-grade
	oxidative-stress-induced recruitment of Rpb1 to the DNA-engaged fraction
	and for its P1465 hydroxylation, phosphorylation, and nondegradative
	ubiquitylation. Egln-9-type prolyl hydroxylases, PHD1 and PHD2, coimmunoprecipitated
	with Rpb1 in the chromatin fraction of VHL(+) RCC cells in response
	to oxidative stress, and PHD1 was necessary for P1465 hydroxylation
	while PHD2 had an inhibitory effect. P1465 hydroxylation was required
	for oxidative-stress-induced Ser5 phosphorylation of Rpb1. Importantly,
	overexpression of wild-type Rpb1 stimulated formation of kidney tumors
	by VHL(+) cells, and this effect was abolished by P1465A mutation
	of Rpb1. These data indicate that through this novel pathway involving
	P1465 hydroxylation and Ser5 phosphorylation of Rbp1, pVHL may regulate
	tumor growth.},
  doi = {10.1128/MCB.01231-07},
  institution = {Department of Molecular Oncogenesis, Genome Research Institute, University
	of Cincinnati, Cincinnati, OH 45237-0505, USA. maria.czyzykkrzeska@uc.edu},
  keywords = {Animals; Cell Line; DNA-Binding Proteins; Humans; Immediate-Early
	Proteins; Mice; Mice, Knockout; Oxidative Stress; Phosphoserine;
	Procollagen-Proline Dioxygenase; Protein Binding; Protein Subunits;
	RNA Polymerase II; Retinol-Binding Proteins, Cellular; Ubiquitination;
	Von Hippel-Lindau Tumor Suppressor Protein},
  owner = {jarek},
  pii = {MCB.01231-07},
  pmid = {18285459},
  timestamp = {2010.01.13},
  url = {http://dx.doi.org/10.1128/MCB.01231-07}
}

@ARTICLE{Naud06,
  author = {A.~Naud},
  title = {{An Accurate MDS-Based Algorithm for the Visualization of Large Multidimensional
	Datasets}},
  journal = {Lecture Notes in Computer Science},
  year = {2006},
  volume = {4029},
  pages = {643--652}
}

@PHDTHESIS{NaudPhD,
  author = {A. Naud},
  title = {Neural and statistical methods for the visualization of multidimensional
	data},
  school = {Department of Computer Methods, Nicholaus Copernicus University},
  year = {2001},
  address = {Toru\'n, Poland}
}

@ARTICLE{Olshavsky2008,
  author = {N. A. Olshavsky and E. M. Groh and C. E S Comstock and L. M. Morey
	and Y. Wang and M. P. Revelo and C. Burd and J. Meller and K. E.
	Knudsen},
  title = {Cyclin D3 action in androgen receptor regulation and prostate cancer.},
  journal = {Oncogene},
  year = {2008},
  volume = {27},
  pages = {3111--3121},
  number = {22},
  month = {May},
  abstract = {Prostate cancer (PCa) cell proliferation is dependent on activation
	of the androgen receptor (AR), a ligand-dependent transcription factor.
	AR activation controls G1-S phase progression through fostering enhanced
	translation of the D-type cyclins, which promote cell cycle progression
	through activation of CDK4/6. However, the D-type cyclins harbor
	additional, CDK4/6 kinase-independent, functions through manipulation
	of transcription factors, including AR. It was previously established
	that cyclins D1 and D3 have the potential to modulate AR, and with
	regard to cyclin D1, disruption of this function occurs in human
	tumors. Therefore, it was essential to interrogate cyclin D3 function
	in this tumor type. Here, we show that cyclin D3 is found in association
	with AR in PCa cells, as mediated through a conserved motif. Cyclin
	D3 functions to attenuate AR activity through defined mechanisms
	that include modulation of ligand-dependent conformational changes
	and modulation of chromatin binding activity. Accumulated cyclin
	D3 slows cell proliferation in AR-dependent cells, thus suggesting
	that androgen-induced D-type cyclin production serves to temper the
	mitogenic response to androgen. Supporting this hypothesis, it is
	shown that cyclin D3 expression is reduced in primary PCas as a function
	of tumor grade, and inversely correlates with the proliferative index.
	In total, these data identify cyclin D3 as a critical modulator of
	the androgen response, whose deregulation may foster unchecked AR
	activity in PCa.},
  doi = {10.1038/sj.onc.1210981},
  institution = {Department of Cell and Cancer Biology, Vontz Center for Molecular
	Studies, University of Cincinnati College of Medicine, Cincinnati,
	OH 45267-0521, USA.},
  keywords = {Adenocarcinoma; Androgens; Animals; COS Cells; Cell Proliferation;
	Cercopithecus aethiops; Cyclin D; Cyclin D3; Cyclin-Dependent Kinase
	4; Cyclins; Disease Progression; Gene Expression Regulation, Neoplastic;
	Humans; Male; Neoplasms, Hormone-Dependent; Prostate-Specific Antigen;
	Prostatic Neoplasms; Protein Binding; Protein Structure, Tertiary;
	Receptors, Androgen; Repressor Proteins; Transfection; Tumor Cells,
	Cultured},
  owner = {jarek},
  pii = {1210981},
  pmid = {18084330},
  timestamp = {2010.01.13},
  url = {http://dx.doi.org/10.1038/sj.onc.1210981}
}

@ARTICLE{Grabczewski96,
  author = {C. Paulson and K. Grąbczewski},
  title = {Mechanizing Set Theory},
  journal = {Journal of Automated Reasoning},
  year = {1996},
  volume = {17},
  number = {3}
}

@TECHREPORT{SchmidhuberJankowski:94,
  author = {J. H. Schmidhuber and N. Jankowski},
  title = {Applications of {Levin's} Optimal Universal Search Algorithm},
  institution = {Fakult\"{a}t f\"{u}r Informatik, Technische Universit\"{a}t M\"{u}nchen},
  year = {1994}
}

@ARTICLE{Shinde10,
  author = {Shinde, Kaustubh and Phatak, Mukta and Freudenberg, Johannes andChen,
	Jing and Li, Qian and Joshi, Vineet and Hu, Zhen and Ghosh, Krishnendu
	and Meller, Jaroslaw and Medvedovic, Mario},
  title = {Genomics Portals: integrative web-platform for mining genomics data},
  journal = {BMC Genomics},
  year = {2010},
  volume = {11},
  pages = {27},
  number = {1},
  abstract = {BACKGROUND:A large amount of experimental data generated by modern
	high-throughput technologies is available through various public
	repositories. Our knowledge about molecular interaction networks,
	functional biological pathways and transcriptional regulatory modules
	is rapidly expanding, and is being organized in lists of functionally
	related genes. Jointly, these two sources of information hold a tremendous
	potential for gaining new insights into functioning of living systems.
	RESULTS:Genomics Portals platform integrates access to an extensive
	knowledge base and a large database of human, mouse, and rat genomics
	data with basic analytical visualization tools. It provides the context
	for analyzing and interpreting new experimental data and the tool
	for effective mining of a large number of publicly available genomics
	datasets stored in the back-end databases. The uniqueness of this
	platform lies in the diversity of genomics data that can be accessed
	and analyzed (gene expression, ChIP-chip, ChIP-seq, epigenomics,
	computationally predicted binding sites, etc), and the integration
	with an extensive knowledge base that can be used in such analysis.
	CONCLUSION:The integrated access to primary genomics data, functional
	knowledge and analytical tools makes Genomics Portals platform a
	unique tool for interpreting results of new genomics experiments
	and for mining the vast amount of data stored in the Genomics Portals
	backend databases. Genomics Portals can be accessed and used freely
	at http://GenomicsPortals.org. },
  doi = {10.1186/1471-2164-11-27},
  issn = {1471-2164},
  url = {http://www.biomedcentral.com/1471-2164/11/27}
}

@INCOLLECTION{SzymDuch11,
  author = {J. Szymański and W. Duch},
  title = {Induction of the Common-Sense Hierarchies in Lexical Data},
  booktitle = {Neural Information Processing},
  publisher = {Springer Berlin / Heidelberg},
  year = {2011},
  editor = {Lu, Bao-Liang and Zhang, Liqing and Kwok, James},
  volume = {7063},
  series = {Lecture Notes in Computer Science},
  pages = {726-734},
  affiliation = {Department of Computer Systems Architecture, Gdańsk University of
	Technology, Poland},
  isbn = {978-3-642-24957-0},
  keyword = {Computer Science},
  url = {http://dx.doi.org/10.1007/978-3-642-24958-7_84}
}

@ARTICLE{Szymanski08,
  author = {J. Szymanski and T. Sarnatowicz and W. Duch},
  title = {Towards Avatars with Artificial Minds: Role of Semantic Memory},
  journal = {Journal of Ubiquitous Computing and Intelligence},
  year = {2008},
  volume = {2},
  pages = {1-11}
}

@ARTICLE{Takatori2008,
  author = {Atsushi Takatori and Esmond Geh and Liang Chen and Lin Zhang and
	Jarek Meller and Ying Xia},
  title = {Differential transmission of MEKK1 morphogenetic signals by JNK1
	and JNK2.},
  journal = {Development},
  year = {2008},
  volume = {135},
  pages = {23--32},
  number = {1},
  month = {Jan},
  abstract = {JNK1 and JNK2 are two ubiquitously expressed isoforms that exert redundant
	roles in many physiological processes, but the extent of their relative
	contributions to these processes has not been well characterized.
	We show that both JNK isoforms transmit MEK kinase 1 (MEKK1)-mediated
	morphogenetic signals during mouse embryonic eyelid closure. However,
	JNK1 and JNK2 are not synonymous, because MEKK1 is haploinsufficient
	for normal eyelid closure in Jnk1-null mice, but is haplosufficient
	in Jnk2-null mice. In the Mekk1 heterozygous background, a more efficient
	phosphorylation of JNK1 than JNK2 leads to differential downstream
	reactions, such as c-Jun phosphorylation and PAI1 expression in the
	developing eyelid epithelium. Differences in efficiency of phosphorylation
	are attributed to JNK1 Gly177 and Ser179 -- residues that are absent
	in JNK2 -- which promote a less ordered structural conformation.
	This leads to more favorable JNK phosphorylation by activin B morphogenetic
	signals mediated by the MEKK1-MKK4 pathway. Interestingly, Mekk1-Jnk1-Jnk2
	triple hemizygotes display a partial eye-open phenotype at birth,
	suggesting that all three genes dose-dependently contribute to morphogenetic
	eyelid closure. We propose that a MEKK1-JNK1/2 axis governs the JNK
	activation levels to control downstream transcriptional events and
	eyelid morphogenesis and that reduction of upstream MEKK1 signals
	uncovers analogous but differential roles of JNK1 and JNK2 in a biological
	process.},
  doi = {10.1242/dev.007120},
  institution = {Department of Environmental Health and Center of Environmental Genetics,
	University of Cincinnati Medical Center, Cincinnati, OH 45267-0056,
	USA.},
  keywords = {Animals; Cell Movement; Cell Shape; Cells, Cultured; Enzyme Activation;
	Epithelial Cells; Eyelids; Gene Expression Regulation, Developmental;
	Gene Expression Regulation, Enzymologic; Humans; Keratinocytes; MAP
	Kinase Kinase Kinase 1; MAP Kinase Signaling System; Mice; Mice,
	Transgenic; Mitogen-Activated Protein Kinase 8; Mitogen-Activated
	Protein Kinase 9; Phosphorylation},
  owner = {jarek},
  pii = {dev.007120},
  pmid = {18032450},
  timestamp = {2010.01.13},
  url = {http://dx.doi.org/10.1242/dev.007120}
}

@ARTICLE{Tan2009,
  author = {Ming Tan and Ming Xia and Yutao Chen and Weiming Bu and Rashmi S
	Hegde and Jarek Meller and Xuemei Li and Xi Jiang},
  title = {Conservation of carbohydrate binding interfaces: evidence of human
	HBGA selection in norovirus evolution.},
  journal = {PLoS One},
  year = {2009},
  volume = {4},
  pages = {e5058},
  number = {4},
  abstract = {BACKGROUND: Human noroviruses are the major viral pathogens of epidemic
	acute gastroenteritis. These genetically diverse viruses comprise
	two major genogroups (GI and GII) and approximately 30 genotypes.
	Noroviruses recognize human histo-blood group antigens (HBGAs) in
	a diverse, strain-specific manner. Recently the crystal structures
	of the HBGA-binding interfaces of the GI Norwalk virus and the GII
	VA387 have been determined, which allows us to examine the genetic
	and structural relationships of the HBGA-binding interfaces of noroviruses
	with variable HBGA-binding patterns. Our hypothesis is that, if HBGAs
	are the viral receptors necessary for norovirus infection and spread,
	their binding interfaces should be under a selection pressure in
	the evolution of noroviruses. METHODS AND FINDINGS: Structural comparison
	of the HBGA-binding interfaces of the two noroviruses has revealed
	shared features but significant differences in the location, sequence
	composition, and HBGA-binding modes. On the other hand, the primary
	sequences of the HBGA-binding interfaces are highly conserved among
	strains within each genogroup. The roles of critical residues within
	the binding sites have been verified by site-directed mutagenesis
	followed by functional analysis of strains with variable HBGA-binding
	patterns. CONCLUSIONS AND SIGNIFICANCE: Our data indicate that the
	human HBGAs are an important factor in norovirus evolution. Each
	of the two major genogroups represents an evolutionary lineage characterized
	by distinct genetic traits. Functional convergence of strains with
	the same HBGA targets subsequently resulted in acquisition of analogous
	HBGA binding interfaces in the two genogroups that share an overall
	structural similarity, despite their distinct locations and amino
	acid compositions. On the other hand, divergent evolution may have
	contributed to the observed overall differences between and within
	the two lineages. Thus, both divergent and convergent evolution,
	as well as the polymorphic human HBGAs, likely contribute to the
	diversity of noroviruses. The finding of genogroup-specific conservation
	of HBGA binding interfaces will facilitate the development of rational
	strategies to control and prevent norovirus-associated gastroenteritis.},
  doi = {10.1371/journal.pone.0005058},
  institution = {Division of Infectious Diseases, Cincinnati Children's Hospital Medical
	Center, Cincinnati, OH, USA.},
  keywords = {Amino Acid Sequence; Base Sequence; Binding Sites; Blood Group Antigens;
	Carbohydrate Metabolism; DNA Primers; Evolution; Humans; Models,
	Molecular; Molecular Sequence Data; Norovirus; Sequence Homology,
	Amino Acid; Viral Proteins},
  owner = {jarek},
  pmid = {19337380},
  timestamp = {2010.01.13},
  url = {http://dx.doi.org/10.1371/journal.pone.0005058}
}

@ARTICLE{Vallat2009,
  author = {Brinda Kizhakke Vallat and Jaroslaw Pillardy and Peter Májek and
	Jaroslaw Meller and Thomas Blom and Baoqiang Cao and Ron Elber},
  title = {Building and assessing atomic models of proteins from structural
	templates: learning and benchmarks.},
  journal = {Proteins},
  year = {2009},
  volume = {76},
  pages = {930--945},
  number = {4},
  month = {Sep},
  abstract = {One approach to predict a protein fold from a sequence (a target)
	is based on structures of related proteins that are used as templates.
	We present an algorithm that examines a set of candidates for templates,
	builds from each of the templates an atomically detailed model, and
	ranks the models. The algorithm performs a hierarchical selection
	of the best model using a diverse set of signals. After a quick and
	suboptimal screening of template candidates from the protein data
	bank, the current method fine-tunes the selection to a few models.
	More detailed signals test the compatibility of the sequence and
	the proposed structures, and are merged to give a global fitness
	measure using linear programming. This algorithm is a component of
	the prediction server LOOPP (http://www.loopp.org). Large-scale training
	and tests sets were designed and are presented. Recent results of
	the LOOPP server in CASP8 are discussed.},
  doi = {10.1002/prot.22401},
  institution = {Department of Chemistry and Biochemistry, Institute of Computational
	Engineering and Sciences, University of Texas at Austin, Austin,
	Texas 78712, USA.},
  keywords = {Algorithms; Computer Simulation; Models, Molecular; Protein Folding;
	Proteins; Structural Homology, Protein},
  owner = {jarek},
  pmid = {19326457},
  timestamp = {2010.01.13},
  url = {http://dx.doi.org/10.1002/prot.22401}
}

@ARTICLE{Heteros06,
  author = {T.~Wieczorek and M.~Blachnik and W.~Duch},
  title = {Heterogeneous distance functions for prototype rules: influence of
	parameters on probability estimation},
  journal = {International Journal of Artificial Intelligence Studies},
  year = {2006},
  volume = {1},
  pages = {xxx--yyy}
}

@ARTICLE{Heteros05,
  author = {T.~Wieczorek and M.~Blachnik and W.~Duch},
  title = {Influence of probability estimation parameters on stability of accuracy
	in prototype rules using heterogeneous distance functions},
  journal = {Artificial Intelligence Studies},
  year = {2005},
  volume = {2},
  pages = {71-78}
}

@BOOK{Metabook11,
  title = {Meta-learning in Computational Intelligence.},
  publisher = {Springer},
  year = {2011},
  editor = {N. Jankowski and W. Duch and K. Grąbczewski},
  volume = {358},
  series = {Studies in Computational Intelligence},
  owner = {Duch},
  timestamp = {2011.11.27}
}