Complex networks: Structure and dynamics
Coupled biological and chemical systems, neural networks, social interacting species, the
Internet and the World Wide Web, are only a few examples of systems composed by a large …
Internet and the World Wide Web, are only a few examples of systems composed by a large …
What is principal component analysis?
M Ringnér - Nature biotechnology, 2008 - nature.com
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Dietary methionine influences therapy in mouse cancer models and alters human metabolism
Nutrition exerts considerable effects on health, and dietary interventions are commonly used
to treat diseases of metabolic aetiology. Although cancer has a substantial metabolic …
to treat diseases of metabolic aetiology. Although cancer has a substantial metabolic …
Capturing heterogeneity in gene expression studies by surrogate variable analysis
It has unambiguously been shown that genetic, environmental, demographic, and technical
factors may have substantial effects on gene expression levels. In addition to the measured …
factors may have substantial effects on gene expression levels. In addition to the measured …
Singular value decomposition and principal component analysis
One of the challenges of bioinformatics is to develop effective ways to analyze global gene
expression data. A rigorous approach to gene expression analysis must involve an up-front …
expression data. A rigorous approach to gene expression analysis must involve an up-front …
Integrative clustering of multiple genomic data types using a joint latent variable model with application to breast and lung cancer subtype analysis
Motivation: The molecular complexity of a tumor manifests itself at the genomic, epigenomic,
transcriptomic and proteomic levels. Genomic profiling at these multiple levels should allow …
transcriptomic and proteomic levels. Genomic profiling at these multiple levels should allow …
CUR matrix decompositions for improved data analysis
Principal components analysis and, more generally, the Singular Value Decomposition are
fundamental data analysis tools that express a data matrix in terms of a sequence of …
fundamental data analysis tools that express a data matrix in terms of a sequence of …
Principal component analysis for clustering gene expression data
Motivation: There is a great need to develop analytical methodology to analyze and to
exploit the information contained in gene expression data. Because of the large number of …
exploit the information contained in gene expression data. Because of the large number of …
Geometric interpretation of gene coexpression network analysis
The merging of network theory and microarray data analysis techniques has spawned a new
field: gene coexpression network analysis. While network methods are increasingly used in …
field: gene coexpression network analysis. While network methods are increasingly used in …
Analyzing and modeling real-world phenomena with complex networks: a survey of applications
The success of new scientific areas can be assessed by their potential in contributing to new
theoretical approaches and in applications to real-world problems. Complex networks have …
theoretical approaches and in applications to real-world problems. Complex networks have …