Biclustering of Expression Data

Jan 31, 2013

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outline. MicroArray and its relative research 1.1 MicroArray Gene Expression Data 1.2 Main research about MicroArray 2. Why Bicluster? 2.1 Preceding research and its faults 2.2 The concept of Bicluster 2.3 Similarity measure3. The hardness of Bicluster. 4. Met

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Biclustering of Expression Data

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Gibbs biclustering of microarray data

Gibbs biclustering of microarray data. Yves Moreau & Qizheng Sheng Katholieke Universiteit Leuven ESAT-SCD (SISTA) on leave at Center for Biological Sequence analysis, Danish Technical University. Clustering. Form coherent groups of Genes Patient samples (e.g., tumors)

758 views • 44 slides

A New Biclustering Algorithm for Analyzing Biological Data

A New Biclustering Algorithm for Analyzing Biological Data. Prashant Paymal Advisor: Dr. Hesham Ali. Introduction. Microarray technology use to study the expression of many genes at once Large amount of data is produced in the microarray technology

451 views • 21 slides

Analysis of Gene Expression Data

Analysis of Gene Expression Data. Rainer Breitling r.breitling@bio.gla.ac.uk Bioinformatics Research Centre and Institute of Biomedical and Life Sciences University of Glasgow. Outline. Gene expression biology Measuring gene expression levels

1.01k views • 60 slides

Clustering Gene Expression Data

Clustering Gene Expression Data. EMBnet: DNA Microarrays Workshop Mar. 4 – Mar. 8, 2002 ,UNIL & EPFL, Lausanne Gaddy Getz, Weizmann Institute, Israel. Gene Expression Data Clustering of Genes and Conditions Methods Agglomerative Hierarchical: Average Linkage Centroids: K-Means

655 views • 39 slides

Expression Data Integration

Expression Data Integration. Microarray Gene Expression Database Meeting Sunday 14th November 1999. Key Topics. Incyte’s experience with expression databases The need for integrated data management and analysis A technology-independent exchange format for expression data.

290 views • 14 slides

Classification of Microarray Gene Expression Data

Classification of Microarray Gene Expression Data. Geoff McLachlan Department of Mathematics & Institute for Molecular Bioscience University of Queensland. Institute for Molecular Bioscience, University of Queensland.

1.38k views • 127 slides

Comparing Biclustering Algorithms

Comparing Biclustering Algorithms. Todd A. Gibson University of Colorado Health Sciences Center Todd.Gibson@UCHSC.edu. Algorithms. Statistical Algorithmic Method for Bicluster Analysis (SAMBA). Order-Preserving Submatrix (OPSM). Flexible Overlapped Clustering (FLOC). Method.

156 views • 3 slides

Examples of Classifying Expression Data

Examples of Classifying Expression Data. 6.892 / 7.90 Computational Functional Genomics Spring 2002. Interpreting patterns of gene expression with self-organizing maps: Methods and application to hematopoietic differentiation.

683 views • 56 slides

Affymetrix Expression Data

Affymetrix Expression Data. Comics Group 12-05-2003 Nijmegen Tim Hulsen. General Information (1). Affymetrix oligo microarrays: HG-U133 A and B (human) and MG-U74v2 A, B and C (mouse) Updated every two months; releases used here: november 2002 and january 2003 UniGene-based

346 views • 18 slides

Statistical analysis of expression data:

Statistical analysis of expression data:. Normalization, differential expression and multiple testing Jelle Goeman. Outline. Normalization Expression variation Modeling the log Fold change Complex designs Shrinkage and empirical Bayes (limma) Multiple testing (False Discovery Rate).

821 views • 54 slides

Statistical Analysis and Expression of Data

Statistical Analysis and Expression of Data. The mean or average. Reading: Lab Manual 29-40 Today: Some basics that will help you the entire year. =  true value,  measurements. ≈  true value, finite # of measurements. Uncertainty given by standard deviation.

297 views • 4 slides

Gene Expression Data

Gene Expression Data. Qifang Xu. Outline. cDNA Microarray Technology Data Representation Statistical Analysis of cDNA Microarray Data Oligonucleotide Microarray Technology Microarray Applications Microarray Databases. cDNA Microarray. Measure the relative levels of expression

370 views • 17 slides

Subspace Clustering/Biclustering

Subspace Clustering/Biclustering. CS 685: Special Topics in Data Mining Spring 2008 Jinze Liu. Data Mining: Clustering. K-means clustering minimizes. Where. Clustering by Pattern Similarity ( p- Clustering).

847 views • 39 slides

More Analysis of Gene Expression Data

More Analysis of Gene Expression Data. Brent D. Foy, Ph.D. Wright State University. Overview. Types of Data Sets Data Analysis Clustering Hierarchical Self-Organizing Maps Principal Components Analysis Statistical Hypothesis Testing (ANOVA). Types of Data – 1D, 2 Conditions. Many genes

582 views • 43 slides

Classification of Microarray Gene Expression Data

Classification of Microarray Gene Expression Data. Geoff McLachlan Department of Mathematics & Institute for Molecular Bioscience University of Queensland joint work with Liat Jones 1 , Angus Ng 1 , and Katrina Monico 1 and Christophe Ambroise 2

1.45k views • 129 slides

Soft clustering of gene expression data

Matthias E. Futschik Institute for Theoretical Biology Humboldt-University, Berlin, Germany. Soft clustering of gene expression data. Clustering methodology. Hierachical clustering can be divisive or agglomerative producing nested clusters.

247 views • 9 slides

Gibbs biclustering of microarray data

Gibbs biclustering of microarray data. Yves Moreau. From genome projects to transcriptome projects. Microarray cost per expression measurement  Budgets and expertise  Publicly available microarray data  Need for exchange standards & repositories

301 views • 27 slides

Expression Data Analysis

Expression Data Analysis. Roy Williams PhD Sanford | Burnham Medical Research Institute. The Omics Revolution. Omics Biology Methods.

544 views • 53 slides

Clustering Gene Expression Data

415 views • 39 slides

Clustering Gene Expression Data

Clustering Gene Expression Data. DNA Microarrays Workshop Feb. 26 – Mar. 2, 2001 ,UNIL & EPFL, Lausanne Gaddy Getz, Weizmann Institute, Israel. Gene Expression Data Clustering of Genes and Conditions Methods Agglomerative Hierarchical: Average Linkage Centroids: K-Means

372 views • 35 slides

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