EURASIP Journal on Bioinformatics and Systems Biology, Volume 2007

Volume 2007, 2007

• Yufei Xiao, Jianping Hua, Edward R. Dougherty:
  Quantification of the Impact of Feature Selection on the Variance of Cross-Validation Error Estimation.
  
• Huai Li, Yu Sun, Ming Zhan:
  Analysis of Gene Coexpression by B-Spline Based CoD Estimation.
  
• Ravi Gupta, Divya Sarthi, Ankush Mittal, Kuldip Singh:
  A Novel Signal Processing Measure to Identify Exact and Inexact Tandem Repeat Patterns in DNA Sequences.
  
• Arvind Rao, Alfred O. Hero III, David J. States, James Douglas Engel:
  Inferring Time-Varying Network Topologies from Gene Expression Data.
  
• Shuqin Zhang, Morihiro Hayashida, Tatsuya Akutsu, Wai-Ki Ching, Michael Kwok-Po Ng:
  Algorithms for Finding Small Attractors in Boolean Networks.
  
• Dorothy Bollman, Omar Colón-Reyes, Edusmildo Orozco:
  Fixed Points in Discrete Models for Regulatory Genetic Networks.
  
• Stephen Marshall, Le Yu, Yufei Xiao, Edward R. Dougherty:
  Inference of a Probabilistic Boolean Network from a Single Observed Temporal Sequence.
  
• Jiuzhou Z. Song, Kan-Ming Duan, T. Ware, Michael G. Surette:
  The Wavelet-Based Cluster Analysis for Temporal Gene Expression Data.
  
• Nestor Walter Trepode, Hugo Aguirre Armelin, Michael L. Bittner, Junior Barrera, Marco Dimas Gubitoso, Ronaldo Fumio Hashimoto:
  A Robust Structural PGN Model for Control of Cell-Cycle Progression Stabilized by Negative Feedbacks.
  
• Marcel Brun, Seungchan Kim, Woonjung Choi, Edward R. Dougherty:
  Comparison of Gene Regulatory Networks via Steady-State Trajectories.
  
• Francesco Fabris, Andrea Sgarro, Alessandro Tossi:
  Splitting the BLOSUM Score into Numbers of Biological Significance.
  
• Sébastien Déjean, Pascal G. P. Martin, Alain Baccini, Philippe Besse:
  Clustering Time-Series Gene Expression Data Using Smoothing Spline Derivatives.
  
• Patrick Emmanuel Meyer, Kevin Kontos, Frédéric Lafitte, Gianluca Bontempi:
  Information-Theoretic Inference of Large Transcriptional Regulatory Networks.
  
• Isabel M. Tienda-Luna, Yufei Huang, Yufang Yin, Diego Pablo Ruiz Padillo, Maria Carmen Carrion Perez:
  Uncovering Gene Regulatory Networks from Time-Series Microarray Data with Variational Bayesian Structural Expectation Maximization.
  
• Jianhua Xuan, Yue Joseph Wang, Yibin Dong, Yuanjian Feng, Bin Wang, Javed I. Khan, Marina Bakay, Zuyi Wang, Lauren Pachman, Sara Winokur, Yi-Wen Chen, Robert Clarke, Eric P. Hoffman:
  Gene Selection for Multiclass Prediction by Weighted Fisher Criterion.
  
• Haruo Suzuki, Rintaro Saito, Masaru Tomita:
  Variation in the Correlation of G + C Composition with Synonymous Codon Usage Bias among Bacteria.
  
• Sachiyo Aburatani, Fuyan Sun, Shigeru Saito, Masao Honda, Shu-ichi Kaneko, Katsuhisa Horimoto:
  Gene Systems Network Inferred from Expression Profiles in Hepatocellular Carcinogenesis by Graphical Gaussian Model.
  
• Edward R. Dougherty, Tatsuya Akutsu, Paul Dan Cristea, Ahmed H. Tewfik:
  Genetic Regulatory Networks.
  
• Antti Niemistö, Matti Nykter, Tommi Aho, Henna Jalovaara, Kalle Marjanen, Miika Ahdesmäki, Pekka Ruusuvuori, Mikko Tiainen, Marja-Leena Linne, Olli Yli-Harja:
  Computational Methods for Estimation of Cell Cycle Phase Distributions of Yeast Cells.
  
• Christopher Michael Hemmerich, Sun Kim:
  A Study of Residue Correlation within Protein Sequences and Its Application to Sequence Classification.
  
• Li M. Fu, Thomas M. Shinnick:
  Genome-Wide Analysis of Intergenic Regions of Mycobacterium tuberculosis H37Rv Using Affymetrix GeneChips.
  
• Blaise Hanczar, Jianping Hua, Edward R. Dougherty:
  Decorrelation of the True and Estimated Classifier Errors in High-Dimensional Settings.
  
• Scott C. Evans, Antonis Kourtidis, T. Stephen Markham, Jonathan Miller, Douglas S. Conklin, Andrew S. Torres:
  MicroRNA Target Detection and Analysis for Genes Related to Breast Cancer Using MDLcompress.
  
• Dario Benedetto, Emanuele Caglioti, Claudia Chica:
  Compressing Proteomes: The Relevance of Medium Range Correlations.
  
• Parikshit Sondhi, Purushottam Raj, V. Vinod Kumar, Ankush Mittal:
  Question Processing and Clustering in INDOC: A Biomedical Question Answering System.
  
• Hasan Metin Aktulga, Ioannis Kontoyiannis, Leszek Alex Lyznik, Lukasz Szpankowski, Ananth Grama, Wojciech Szpankowski:
  Identifying Statistical Dependence in Genomic Sequences via Mutual Information Estimates.
  
• Hena Jose, Vadivukarasi Thangavel, Jyothi Devakumar:
  Extraction of Protein Interaction Data: A Comparative Analysis of Methods in Use.
  
• Arvind Rao, Alfred O. Hero III, David J. States, James Douglas Engel:
  Motif Discovery in Tissue-Specific Regulatory Sequences Using Directed Information.
  
• John S. Conery:
  Aligning Sequences by Minimum Description Length.
  
• Petri Kontkanen, Hannes Wettig, Petri Myllymäki:
  NML Computation Algorithms for Tree-Structured Multinomial Bayesian Networks.
  
• Anamika Sarkar, Marina Meila, Robert Robert Franza:
  IκB, NF-κB Regulation Model: Simulation Analysis of Small Number of Molecules.
  
• Jorma Rissanen, Peter D. Grünwald, Jukka Heikkonen, Petri Myllymäki, Teemu Roos, Juho Rousu:
  Information Theoretic Methods for Bioinformatics.
  

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