Computational Biology and Machine Learning

Publications

Research Areas (all - type sorted, all - area sorted)Publication Type
BNBiological and Complex Networks   BSBiostatistics
CBComputational Biology   CNComputational Neuroscience
ITInformation Theory   MLMachine Learning
MCMC Methods   CIComputational Intelligence
JJournal Article
CConference Article
BBook
BEBook (Ed.)
BCBook Chapter
PEProceedings (Ed.)
PAProceedings (Ass. Ed.)
TThesis
TRTechnical Report
Thesis
  1. Frank Emmert-Streib
    Aktive Computation in offenen Systemen. Lerndynamiken in biologischen Systemen: Vom Netzwerk zum Organismus
    Ph.D. Thesis - Theoretical Physics, Universität Bremen (Germany) (2003).
  1. Frank Emmert-Streib
    Quantenmechanik eines nicht abgeschlossenen Zwei-Niveau-Systems
    Diploma Thesis - Theoretical Physics, Universität Siegen (Germany) (1998).
Books
  1. Frank Emmert-Streib
    Aktive Computation in offenen Systemen. Lerndynamiken in biologischen Systemen: Vom Netzwerk zum Organismus
    Mensch & Buch Verlag, Berlin (2004).
Proceedings (Associate Editor)
  1. Hamid Arabnia and Mary Qu Yang and Jack Y. Yang (Editors)
    Proceedings of the 2007 International Conference on Bioinformatics and Computational Biology (BIOCOMP'07)
    Frank Emmert-Streib (Associate Editor), CSREA Press (2007).
  1. Hamid Arabnia and Mary Qu Yang and Jack Y. Yang (Editors)
    Proceedings of the 2007 International Conference on Artificial Intelligence (ICAI'07)
    Frank Emmert-Streib (Associate Editor), CSREA Press (2007).
  1. Hamid Arabnia and Mary Qu Yang and Jack Y. Yang (Editors)
    Proceedings of the 2007 International Conference on Scientific Computing (CSC'07)
    Frank Emmert-Streib (Associate Editor), CSREA Press (2007).
  1. Hamid Arabnia and Mary Qu Yang and Jack Y. Yang (Editors)
    Proceedings of the 2007 International Conference on Genetic and Evolutionary Methods (GEM'07)
    Frank Emmert-Streib (Associate Editor), CSREA Press (2007).
  1. Hamid R. Arabnia and Homayoun Valafar (Editors)
    Proceedings of the 2006 International Conference on Bioinformatics and Computational Biology (BIOCOMP'06)
    Frank Emmert-Streib (Associate Editor), CSREA Press (2006).
Journal Articles
  1. Frank Emmert-Streib
    Detecting Modules in the Transcriptional Regulatory Network of Saccharomyces cerevisiae
    , in preparation (2007).
  1. Frank Emmert-Streib and Lin Chen and John D. Storey
    Functional Annotation of Genes in Saccharomyces cerevisiae based on Joint Betweenness
    , in preparation (2007).
  1. Frank Emmert-Streib and Arcady Mushegian
    Topological Classification of Protein Structures by Knot Polynomials
    , in preparation (2007).
  1. Matthias Dehmer and Frank Emmert-Streib
    The Structural Information Content of Chemical Networks
    Zeitschrift für Natuerforschung A, accepted. (2008).
  1. Frank Emmert-Streib and Matthias Dehmer
    Information Processing in Protein Networks: Functional Robustness Regarding Information Loss
    submitted. (2008).
  1. Frank Emmert-Streib and Matthias Dehmer
    Fault Tolerance of Information Processing in Gene Networks
    submitted. (2008).
  1. Frank Emmert-Streib and Matthias Dehmer
    Robustness in Scale-free Networks: Comparing Directed and Undirected Networks
    International Journal of Modern Physics C, 19(5) (2008).
  1. Matthias Dehmer and Frank Emmert-Streib
    Structural Information Content of Networks: Graph Entropy based on Local Vertex Functionals
    Computational Biology and Chemistry, 32(2), 131-138 (2008).
  1. Matthias Dehmer and Frank Emmert-Streib and Tanja Gesell
    A Comparative Analysis of Multidimensional Features of Objects Resembling Sets of Graphs
    Applied Mathematics and Computation, 196(1), 221-235 (2008).
  1. Frank Emmert-Streib and Matthias Dehmer
    Nonlinear Time Series Prediction based on a Power-Law Noise Model
    International Journal of Modern Physics C, 18(12), 1839-1852 (2007).
  1. Lin Chen and Frank Emmert-Streib and John D. Storey
    Harnessing naturally randomized transcription to infer regulatory relationships among genes
    Genome Biology, 8(10), R219 (2007).
  1. Frank Emmert-Streib and Arcady Mushegian
    A Topological Algorithm for Identification of Structural Domains of Proteins
    BMC Bioinformatics, 8, 237 (2007).
  1. Frank Emmert-Streib
    The Chronic Fatigue Syndrome: A Comparative Pathway Analysis
    Journal of Computational Biology, 14(7), 961-972 (2007).
  1. Matthias Dehmer and Frank Emmert-Streib
    Structural Similarity of Directed Universal Hierarchical Graphs: A low Computational Complexity Approach
    Applied Mathematics and Computation, 194(1) (2007).
  1. Frank Emmert-Streib and Matthias Dehmer
    Information Theoretic Measures of UHG Graphs with Low Computational Complexity
    Applied Mathematics and Computation, 190(2), 1783-1794 (2007).
  1. Matthias Dehmer and Frank Emmert-Streib
    Comparing Large Graphs Efficiently by Margines of Feature Vectors
    Applied Mathematics and Computation, 188(2), 1699-1710 (2007).
  1. Frank Emmert-Streib and Matthias Dehmer
    Toppolocial Mappings between Graphs, Trees and Generalized Trees
    Applied Mathematics and Computation, 186(2), 1326-1333 (2007).
  1. Frank Emmert-Streib
    A Heterosynaptic Learning Rule for Neural Networks
    International Journal of Modern Physics C, 17(10), 1501-1520 (2006).
  1. Matthias Dehmer and Frank Emmert-Streib and Olaf Wolkenhauer
    Perspectives of Graph Mining Techniques
    Rostocker Informatik Berichte, 30(2), 47--56 (2006).
  1. Matthias Dehmer and Frank Emmert-Streib and Jürgen Kilian
    A Similarity Measure for Graphs with Low Computational Complexity
    Applied Mathematics and Computation, 182(1), 447-459 (2006).
  1. Frank Emmert-Streib
    Algorithmic Computation of Knot Polynomials of Secondary Structure Elemtents of Proteins
    Journal of Computational Biology, 13(8), 1503-1512 (2006).
  1. Frank Emmert-Streib
    Influence of the neural network topology on the learning dynamics
    Neurocomputing, 69(10-12), 1179--1182 (2006).
  1. Matthias Dehmer and Frank Emmert-Streib and Alexander Mehler and Jürgen Kilian
    Measuring the Structural Similarity of Web-based Documents: A novel Approach
    International Journal of Computational Intelligence, 3(1), 1-7 (2006).
  1. Frank Emmert-Streib and Matthias Dehmer and Jing Liu and Max Mühlhäuser
    Ranking Genes from DNA Microarray Data of Cervical Cancer by a local Tree Comparison
    International Journal of Biomedical Sciences, 1(1), 17-22 (2006).
  1. Frank Emmert-Streib
    Active Learning in Recurrent Neural Networks Facilitated by an Hebb-like Learning Rule with Memory
    Neural Information Processing - Letters and Reviews, 9(2), 31-40 (2005).
  1. Frank Emmert-Streib
    Stochastic Sznajd Model in Open Community
    International Journal of Modern Physics C, 16(11), 1693-1700 (2005).
  1. Frank Emmert-Streib
    Self-organized annealing in laterally inhibited neural networks shows power law decay
    Neural Information Processing - Letters and Reviews, 7(1), 29-38 (2005).
  1. Jens R. Otterpohl and Frank Emmert-Streib and Klaus Pawelzik
    A constrained HMM-based approach to the estimation of perceptual switching dynamics in Pigeons
    Neurocomputing, 38-40, 1495-1501 (2001).
  1. Jens R. Otterpohl and John D. Haynes and Frank Emmert-Streib and G. Vetter and Klaus Pawelzik
    Extracting the Dynamics of Perceptual Switching from Noisy Behaviour: An Application of Hidden Markov Modeling to Pecking Data from Pigeons
    Journal of Physiology (Paris), 94(5-6), 555-567 (2000).
Conference Articles
  1. Frank Emmert-Streib and Andre S. Ribeiro
    Optimize Observational Time Points to Maximize the Inferability of Gene Networks
    BIOCOMP'08 - The 2008 International Conference on Bioinformatics & Computational Biology, Arabnia, H.A. (Eds.), accepted. (2008).
  1. Frank Emmert-Streib and Matthias Dehmer
    Global Information Processing in Gene Networks: Fault Tolerance
    Workshop on Computing and Communications from Biological Systems: Theory and Applications (CCBS), accepted. (2007).
  1. Frank Emmert-Streib and Matthias Dehmer
    Optimization Procedure for Predicting Nonlinear Time Series based on a non-Gaussian Noise Model
    MICAI 2007: Advances in Artificial Intelligence, Lecture Notes in Computes Science (LNCS), 540-549 (2007).
  1. Matthias Dehmer and Frank Emmert-Streib
    A Graph Mining Technique for Automatic Classification of Web Genre Data
    MLMTA'07 - The 2007 International Conference on Machine Learning: Models, Technologies & Applications, CSREA Press, accepted (2007).
  1. Matthias Dehmer and Alexander Mehler and Frank Emmert-Streib
    Generalized Trees: Graph-Theoretical Characteristics and Distributions
    MLMTA'07 - The 2007 International Conference on Machine Learning: Models, Technologies & Applications, CSREA Press, accepted (2007).
  1. Frank Emmert-Streib and Matthias Dehmer and Chris Seidel
    Influence of Prior Information on the Reconstruction of the Yeast Cell Cycle from Microarray Data
    BIOCOMP'06 - The 2006 International Conference on Bioinformatics & Computational Biology, Arabnia, H.A. and Valafar, H. (Eds.), CSREA Press, 477-482 (2006).
  1. Frank Emmert-Streib and Matthias Dehmer
    Theoretical Bounds for the Number of inferable Edges in sparse Random Networks
    BIOCOMP'06 - The 2006 International Conference on Bioinformatics & Computational Biology, Arabnia, H.A. and Valafar, H. (Eds.), CSREA Press, 472-476 (2006).
  1. Frank Emmert-Streib and Eearl F. Glynn and Christopher Seidel and Christoph L. Bausch and Arcady Mushegian
    Detecting Pathological Pathways of the Chronic Fatigue Syndrome by the Comparison of Networks
    Critical Assessment of Microarray Data Analysis (CAMDA), accepted (2006).
  1. Earl F. Glynn and Frank Emmert-Streib and Arcady Mushegian
    An Attempt to Categorize the Servity of the Chronic Fatigue Syndrome Disease using Affective Disorder Pathways
    Critical Assessment of Microarray Data Analysis (CAMDA), accepted (2006).
  1. Frank Emmert-Streib and Mathhias Dehmer
    A Systems Biology approach for the classification of DNA microarray data
    International Conference on Artificial Neural Networks (ICANN), Workshop on applications of statistical and machine learning in Bioinformatics, Nicolaus Copernicus University in Torun, Warsaw, Poland, (2005).
  1. Frank Emmert-Streib
    A Novel Stochastic Learning Rule for Neural Networks
    Advances in Neural Networks - ISNN 2006: Third International Symposium on Neural Networks, Lecture Notes in Computer Science (LNCS), Jun Wang and Zhang Yi and Jacek M. Zurada and Bao-Liang Lu and Hujun Yin (Eds.), Springer, 414--423 (2006).
  1. Frank Emmert-Streib and Matthias Dehmer
    First Studies of the Influence of Single Gene Perturbations on the Inference of Genetic Networks
    VIII. International Conference on Enformatika, Systems Sciences and Engineering, Krakow, 10, 65-69 (2005).
  1. Frank Emmert-Streib and Matthias Dehmer and Gökhan H. Bakir and M. Mühlhäuser
    Influence of Noise on the Inference of Dynamic Bayesian Networks from Short Time Series
    VIII. International Conference on Enformatika, Systems Sciences and Engineering, 10, 70-74 (2005).
  1. Matthias Dehmer and Frank Emmert-Streib and Jürgen Kilian and Andreas Zulauf
    Towards Clustering of Web-based Document Structures
    VIII. International Conference on Enformatika, Systems Sciences and Engineering, 10, 304-309 (2005).
  1. Frank Emmert-Streib and Matthias Dehmer and Jing Liu and Max Mühlhäuser
    A systems approach to gene ranking from DNA Microarray Data of cervical cancer
    VI. International Conference on Enformatika, Systems Sciences and Engineering, 8, 82-87 (2005).
  1. Frank Emmert-Streib
    Protein graph partitioning by mutually maximization of cycle distributions
    VI. International Conference on Enformatika, Systems Sciences and Engineering, 8, 88-92 (2005).
  1. Matthias Dehmer and Frank Emmert-Streib and Alexander Mehler and Jürgen Kilian and Max Mühlhäuser
    Application of a similarity measure for graphs to web-based document structures
    VI. International Conference on Enformatika, Systems Sciences and Engineering, 8, 77-81 (2005).
  1. Frank Emmert-Streib
    A neurobiologically motivated model for self-organized learning
    MICAI 2005: Advances in Artificial Intelligence, Lecture Notes in Computes Science (LNCS), Lecture Notes in Artificial Intelligence, Alexander Gelbukh and Hugo Terashima (Eds.), Springer, 3789, 415-424 (2005).
  1. Frank Emmert-Streib
    Self-Reinforcement Learning: A neurobiologically motivated Model
    Annual Conference on Artificial & Computational Intelligence for Decision, Control and Automation in Engineering and Industrial Applications - International Conference on Machine Intelligence (ACIDCA-ICMI), 335-342 (2005).
  1. Frank Emmert-Streib and Matthias Dehmer and Jürgen Kilian
    Classification of large graphs by a local tree decomposition
    Proceedings of the 2005 International Conference on Data Mining (DMIN'05), H.R. Arabnia and A. Scime (Eds.), 200-207 (2005).
  1. J. Michael Herrmann and Frank Emmert-Streib and Klaus Pawelzik
    Autonomous robots and neuroethology: Emergence of behavior from a sense of curiosity
    Experiments with the Mini-Robot Khepera, Proceedings of the 1st Int. Khepera Workshop, U. Rüückert A. Löffler, F. Mondada (Eds.), HNI-Verlagsschriftenreihe, 64, 89-98 (1999).
Frank Emmert-Streib

Last modified: July 25 2007