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BMCBI
2006
120views more  BMCBI 2006»
13 years 11 months ago
A factor analysis model for functional genomics
Background: Expression array data are used to predict biological functions of uncharacterized genes by comparing their expression profiles to those of characterized genes. While b...
Rafal Kustra, Romy Shioda, Mu Zhu
BMCBI
2006
121views more  BMCBI 2006»
13 years 11 months ago
Evaluation of sequence alignments and oligonucleotide probes with respect to three-dimensional structure of ribosomal RNA using
Background: Availability of high-resolution RNA crystal structures for the 30S and 50S ribosomal subunits and the subsequent validation of comparative secondary structure models h...
Yadhu Kumar, Ralf Westram, Peter Kipfer, Harald Me...
BMCBI
2006
143views more  BMCBI 2006»
13 years 11 months ago
Discovering functional gene expression patterns in the metabolic network of Escherichia coli with wavelets transforms
Background: Microarray technology produces gene expression data on a genomic scale for an endless variety of organisms and conditions. However, this vast amount of information nee...
Rainer König, Gunnar Schramm, Marcus Oswald, ...
BMCBI
2006
85views more  BMCBI 2006»
13 years 11 months ago
Quality control for terms and definitions in ontologies and taxonomies
Background: Ontologies and taxonomies are among the most important computational resources for molecular biology and bioinformatics. A series of recent papers has shown that the G...
Jacob Köhler, Katherine Munn, Alexander R&uum...
BMCBI
2006
119views more  BMCBI 2006»
13 years 11 months ago
A methodology for the structural and functional analysis of signaling and regulatory networks
Background: Structural analysis of cellular interaction networks contributes to a deeper understanding of network-wide interdependencies, causal relationships, and basic functiona...
Steffen Klamt, Julio Saez-Rodriguez, Jonathan A. L...
BMCBI
2006
99views more  BMCBI 2006»
13 years 11 months ago
A proposed metric for assessing the measurement quality of individual microarrays
Background: High-density microarray technology is increasingly applied to study gene expression levels on a large scale. Microarray experiments rely on several critical steps that...
Kyoungmi Kim, Grier P. Page, T. Mark Beasley, Step...
BMCBI
2006
126views more  BMCBI 2006»
13 years 11 months ago
Effect of data normalization on fuzzy clustering of DNA microarray data
Background: Microarray technology has made it possible to simultaneously measure the expression levels of large numbers of genes in a short time. Gene expression data is informati...
Seo Young Kim, Jae Won Lee, Jong Sung Bae
BMCBI
2006
120views more  BMCBI 2006»
13 years 11 months ago
An improved distance measure between the expression profiles linking co-expression and co-regulation in mouse
Background: Many statistical algorithms combine microarray expression data and genome sequence data to identify transcription factor binding motifs in the low eukaryotic genomes. ...
Ryung S. Kim, Hongkai Ji, Wing Hung Wong
BMCBI
2006
114views more  BMCBI 2006»
13 years 11 months ago
Empirical validation of the S-Score algorithm in the analysis of gene expression data
Background: Current methods of analyzing Affymetrix GeneChip
Richard E. Kennedy, Kellie J. Archer, Michael F. M...