Inference of Gene Regulatory Networks Based on a Universal Minimum Description Length

Dougherty John,Tabus Ioan,Astola Jaakko

Recovering Genetic Regulatory Networks from Chromatin Immunoprecipitation and Steady-State Microarray Data

Zhao Wentao,Serpedin Erchin,Dougherty Edward

Which Is Better: Holdout or Full-Sample Classifier Design?

Brun Marcel,Xu Qian,Dougherty Edward

Detecting Periodic Genes from Irregularly Sampled Gene Expressions: A Comparison Study

Zhao Wentao,Agyepong Kwadwo,Serpedin Erchin,Dougherty Edward

Integrating Biosystem Models Using Waveform Relaxation

Li Linzhong,Seymour RobertM,Baigent Stephen

Identifying Statistical Dependence in Genomic Sequences via Mutual Information Estimates

Aktulga Hasan,Kontoyiannis Ioannis,Lyznik L Alex,Szpankowski Lukasz

Decorrelation of the True and Estimated Classifier Errors in High-Dimensional Settings

Hanczar Blaise,Hua Jianping,Dougherty Edward

Algorithms for Finding Small Attractors in Boolean Networks

Zhang Shu-Qin,Hayashida Morihiro,Akutsu Tatsuya,Ching Wai-Ki

Genetic Regulatory Networks

Dougherty Edward,Akutsu Tatsuya,Dan Cristea Paul,Tewfik Ahmed

Question Processing and Clustering in INDOC: A Biomedical Question Answering System

Sondhi Parikshit,Raj Purushottam,Kumar V Vinod,Mittal Ankush

Splitting the BLOSUM Score into Numbers of Biological Significance

Fabris Francesco,Sgarro Andrea,Tossi Alessandro

Genome-Wide Analysis of Intergenic Regions of Mycobacterium tuberculosis H37Rv Using Affymetrix GeneChips

Fu Li,Shinnick Thomas

Motif Discovery in Tissue-Specific Regulatory Sequences Using Directed Information

Rao Arvind,Hero Alfred,States David,Engel James

Quantification of the Impact of Feature Selection on the Variance of Cross-Validation Error Estimation

Xiao Yufei,Hua Jianping,Dougherty Edward

A Novel Signal Processing Measure to Identify Exact and Inexact Tandem Repeat Patterns in DNA Sequences

Gupta Ravi,Sarthi Divya,Mittal Ankush,Singh Kuldip

The Wavelet-Based Cluster Analysis for Temporal Gene Expression Data

Song JZ,Duan KM,Ware T,Surette M

MicroRNA Target Detection and Analysis for Genes Related to Breast Cancer Using MDLcompress

Evans Scott,Kourtidis Antonis,Markham T Stephen,Miller Jonathan

Inference of a Probabilistic Boolean Network from a Single Observed Temporal Sequence

Marshall Stephen,Yu Le,Xiao Yufei,Dougherty Edward

Fixed Points in Discrete Models for Regulatory Genetic Networks

Bollman Dorothy,Colón-Reyes Omar,Orozco Edusmildo

Aligning Sequences by Minimum Description Length

Conery JohnS

Compressing Proteomes: The Relevance of Medium Range Correlations

Benedetto Dario,Caglioti Emanuele,Chica Claudia

Variation in the Correlation of G + C Composition with Synonymous Codon Usage Bias among Bacteria

Suzuki Haruo,Saito Rintaro,Tomita Masaru

Information-Theoretic Inference of Large Transcriptional Regulatory Networks

Meyer Patrick,Kontos Kevin,Lafitte Frederic,Bontempi Gianluca

A Robust Structural PGN Model for Control of Cell-Cycle Progression Stabilized by Negative Feedbacks

Trepode Nestor,Armelin Hugo,Bittner Michael,Barrera Junior

Information Theoretic Methods for Bioinformatics

Rissanen Jorma,Grünwald Peter,Heikkonen Jukka,Myllym？ki Petri

A Study of Residue Correlation within Protein Sequences and Its Application to Sequence Classification

Hemmerich Chris,Kim Sun

Uncovering Gene Regulatory Networks from Time-Series Microarray Data with Variational Bayesian Structural Expectation Maximization

Luna Isabel,Huang Yufei,Yin Yufang,Padillo Diego

Clustering Time-Series Gene Expression Data Using Smoothing Spline Derivatives

Déjean S,Martin PGP,Baccini A,Besse P

Inferring Time-Varying Network Topologies from Gene Expression Data

Rao Arvind,Hero Alfred,States David,Engel James

Extraction of Protein Interaction Data: A Comparative Analysis of Methods in Use

Jose Hena,Vadivukarasi Thangavel,Devakumar Jyothi

Analysis of Gene Coexpression by B-Spline Based CoD Estimation

Li Huai,Sun Yu,Zhan Ming

NML Computation Algorithms for Tree-Structured Multinomial Bayesian Networks

Kontkanen Petri,Wettig Hannes,Myllym？ki Petri

Gene Selection for Multiclass Prediction by Weighted Fisher Criterion

Xuan Jianhua,Wang Yue,Dong Yibin,Feng Yuanjian

Comparison of Gene Regulatory Networks via Steady-State Trajectories

Brun Marcel,Kim Seungchan,Choi Woonjung,Dougherty Edward

Computational Methods for Estimation of Cell Cycle Phase Distributions of Yeast Cells

Niemist？ Antti,Nykter Matti,Aho Tommi,Jalovaara Henna

Gene Systems Network Inferred from Expression Profiles in Hepatocellular Carcinogenesis by Graphical Gaussian Model

Aburatani Sachiyo,Sun Fuyan,Saito Shigeru,Honda Masao

An Improved Algorithm for the Piecewise-Smooth Mumford and Shah Model in Image Segmentation

The -Version of the Cramér-von Mises Test for Two-Sample Comparisons in Microarray Data Analysis

Xiao Yuanhui,Gordon Alexander,Yakovlev Andrei

Reaction-Diffusion Modeling ERK- and STAT-Interaction Dynamics

Georgiev Nikola,Petrov Valko,Georgiev Georgi

Multipattern Consensus Regions in Multiple Aligned Protein Sequences and Their Segmentation

Chiu David,Wang Yan

Normalization Benefits Microarray-Based Classification

Hua Jianping,Balagurunathan Yoganand,Chen Yidong,Lowey James

Stochastic Oscillations in Genetic Regulatory Networks: Application to Microarray Experiments

Rosenfeld Simon

An Improved Algorithm for the Piecewise-Smooth Mumford and Shah Model in Image Segmentation

Zhang Yingjie

Analysis of Free Energy Signals Arising from Nucleotide Hybridization Between rRNA and mRNA Sequences during Translation in Eubacteria

Ponnala Lalit,Stomp Anne-Marie,Bitzer Donald,Vouk Mladen