Information criterion-based clustering with order-restricted candidate profiles in short time-course microarray experiments

[1]  Robert A. Muenchen,et al.  Help and Documentation , 2010 .

[2]  Yang Feng,et al.  Bayesian Functional Data Clustering for Temporal Microarray Data , 2008, International journal of plant genomics.

[3]  Olivier Martin,et al.  Using repeated measurements to validate hierarchical gene clusters , 2008, Bioinform..

[4]  Paola Sebastiani,et al.  Conditional clustering of temporal expression profiles , 2008, BMC Bioinformatics.

[5]  Ho-Jin Lee,et al.  Clustering of time-course gene expression data using functional data analysis , 2007, Comput. Biol. Chem..

[6]  Jihoon Kim,et al.  Difference-based clustering of short time-course microarray data with replicates , 2007, BMC Bioinformatics.

[7]  Paola Sebastiani,et al.  Clustering Short Gene Expression Profiles , 2006, RECOMB.

[8]  Wenxuan Zhong,et al.  A data-driven clustering method for time course gene expression data , 2006, Nucleic acids research.

[9]  Shyamal D. Peddada,et al.  ORIOGEN: order restricted inference for ordered gene expression data , 2005, Bioinform..

[10]  Fang-Xiang Wu,et al.  Dynamic Model-based Clustering for Time-course Gene Expression Data , 2005, J. Bioinform. Comput. Biol..

[11]  Ziv Bar-Joseph,et al.  Clustering short time series gene expression data , 2005, ISMB.

[12]  Hongzhe Li,et al.  Model-based methods for identifying periodically expressed genes based on time course microarray gene expression data , 2004, Bioinform..

[13]  Debashis Ghosh,et al.  Cluster stability scores for microarray data in cancer studies , 2003, BMC Bioinformatics.

[14]  Xinglai Ji,et al.  Mining gene expression data using a novel approach based on hidden Markov models , 2003, FEBS letters.

[15]  Shyamal D. Peddada,et al.  Gene Selection and Clustering for Time-course and Dose-response Microarray Experiments Using Order-restricted Inference , 2003, Bioinform..

[16]  Hongzhe Li,et al.  Clustering of time-course gene expression data using a mixed-effects model with B-splines , 2003, Bioinform..

[17]  Lawrence Hunter,et al.  Trajectory Clustering: A Non-Parametric Method for Grouping Gene Expression Time Courses with Applications to Mammary Development , 2002, Pacific Symposium on Biocomputing.

[18]  Kwang-Hyun Cho,et al.  Microarray data clustering based on temporal variation: FCV with TSD preclustering. , 2003, Applied bioinformatics.

[19]  Tommi S. Jaakkola,et al.  Continuous Representations of Time-Series Gene Expression Data , 2003, J. Comput. Biol..

[20]  Satoru Miyano,et al.  Statistical analysis of a small set of time-ordered gene expression data using linear splines , 2002, Bioinform..

[21]  S. Falkow,et al.  Cag pathogenicity island-specific responses of gastric epithelial cells to Helicobacter pylori infection , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[22]  Francis D. Gibbons,et al.  Judging the quality of gene expression-based clustering methods using gene annotation. , 2002, Genome research.

[23]  B. S. Baker,et al.  Gene Expression During the Life Cycle of Drosophila melanogaster , 2002, Science.

[24]  Kai-Florian Storch,et al.  corrigendum: Extensive and divergent circadian gene expression in liver and heart , 2002, Nature.

[25]  Paola Sebastiani,et al.  Cluster analysis of gene expression dynamics , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[26]  E. Lobenhofer,et al.  Regulation of DNA Replication Fork Genes by 17β-Estradiol , 2002 .

[27]  Kai-Florian Storch,et al.  Extensive and divergent circadian gene expression in liver and heart , 2002, Nature.

[28]  Limin Peng,et al.  Model selection under order restriction , 2002 .

[29]  E. Lobenhofer,et al.  Regulation of DNA replication fork genes by 17beta-estradiol. , 2002, Molecular endocrinology.

[30]  Thomas A. Darden,et al.  Gene selection for sample classification based on gene expression data: study of sensitivity to choice of parameters of the GA/KNN method , 2001, Bioinform..

[31]  N. Shi,et al.  ONE-SIDED ESTIMATING AND TESTING PROBLEMS FOR LOCATION MODELS FROM GROUPED SAMPLES , 2001 .

[32]  A. Levine,et al.  Gene assessment and sample classification for gene expression data using a genetic algorithm/k-nearest neighbor method. , 2001, Combinatorial chemistry & high throughput screening.

[33]  M K Kerr,et al.  Bootstrapping cluster analysis: Assessing the reliability of conclusions from microarray experiments , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[34]  Ka Yee Yeung,et al.  Validating clustering for gene expression data , 2001, Bioinform..

[35]  D. Botstein,et al.  Genomic expression programs in the response of yeast cells to environmental changes. , 2000, Molecular biology of the cell.

[36]  Laurie J. Heyer,et al.  Exploring expression data: identification and analysis of coexpressed genes. , 1999, Genome research.

[37]  Kazuo Anraku,et al.  An information criterion for parameters under a simple order restriction , 1999 .

[38]  D. Botstein,et al.  Cluster analysis and display of genome-wide expression patterns. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[39]  D. Botstein,et al.  The transcriptional program of sporulation in budding yeast. , 1998, Science.

[40]  Y. Chen,et al.  Ratio-based decisions and the quantitative analysis of cDNA microarray images. , 1997, Journal of biomedical optics.

[41]  N. Shi.  Maximum likelihood estimation of means and variances from normal populations under simultaneous order restrictions , 1994 .

[42]  Shyamal D. Peddada,et al.  Confidence Interval Estimation Subject to Order Restrictions , 1994 .

[43]  F. T. Wright,et al.  Order restricted statistical inference , 1988 .

[44]  G. Schwarz.  Estimating the Dimension of a Model , 1978 .

[45]  H. Akaike.  A new look at the statistical model identification , 1974 .

[46]  William M. Rand,et al.  Objective Criteria for the Evaluation of Clustering Methods , 1971 .