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Socorro Gama-Castro et al.
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Accurate Quantification of Functional Analogy among Close Homologs
Maria D. Chikina et al.
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ArrayExpress update-from an archive of functional genomics experiments to the atlas of gene expression
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Lars J. Jensen et al.
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RSAT:: regulatory sequence analysis tools
Morgane Thomas-Chollier et al.
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Jeremiah J. Faith et al.
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Richard Bonneau et al.
CELL (2007)
The Firegoose: two-way integration of diverse data from different bioinformatics web resources with desktop applications
J. Christopher Bare et al.
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Olivier Elemento et al.
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EDISA: extracting biclusters from multiple time-series of gene expression profiles
Jochen Supper et al.
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Comparative biology: beyond sequence analysis
Itay Tirosh et al.
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Curtis Huttenhower et al.
BMC BIOINFORMATICS (2007)
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Lars Malmstrom et al.
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Ryan C. Fink et al.
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BioNetBuilder: automatic integration of biological networks
Iliana Avila-Campillo et al.
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Igor Ulitsky et al.
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Sungear:: interactive visualization and functional analysis of genomic datasets
Christopher S. Poultney et al.
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Itay Tirosh et al.
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Melissa S. Cline et al.
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RegTransBase - a database of regulatory sequences and interactions in a wide range of prokaryotic genomes
Alexei E. Kazakov et al.
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Cross-species analysis of biological networks by Bayesian alignment
Johannes Berg et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)
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David J. Reiss et al.
BMC BIOINFORMATICS (2006)
Graph-based analysis and visualization of experimental results with ONDEX
Jacob Kohler et al.
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A systematic comparison and evaluation of biclustering methods for gene expression data
A Prelic et al.
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The Gaggle: An open-source software system for integrating bioinformatics software and data sources
Paul T. Shannon et al.
BMC BIOINFORMATICS (2006)
BIOZON: a system for unification, management and analysis of heterogeneous biological data
A Birkland et al.
BMC BIOINFORMATICS (2006)
PathSys: integrating molecular interaction graphs for systems biology
M Baitaluk et al.
BMC BIOINFORMATICS (2006)
BIOZON: a hub of heterogeneous biological data
Aaron Birkland et al.
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J Ihmels et al.
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The MicrobesOnline web site for comparative genomics
EJ Alm et al.
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Conservation and evolvability in regulatory networks: The evolution of ribosomal regulation in yeast
A Tanay et al.
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The Yeast Resource Center Public Data Repository
M Riffle et al.
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Entrez Gene: gene-centered information at NCBI
D Maglott et al.
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Identification and functional analysis of 'hypothetical' genes expressed in Haemophilus influenzae
E Kolker et al.
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Revealing modularity and organization in the yeast molecular network by integrated analysis of highly heterogeneous genomewide data
A Tanay et al.
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J Ihmels et al.
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Similarities and differences in genome-wide expression data of six organisms
S Bergmann et al.
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Prolinks: a database of protein functional linkages derived from coevolution
PM Bowers et al.
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JM Stuart et al.
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Regulatory Sequence Analysis Tools
J van Helden
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Spectral biclustering of microarray data: Coclustering genes and conditions
Y Kluger et al.
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ArrayExpress - a public repository for microarray gene expression data at the EBI
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BJ Breitkreutz et al.
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Predictome: a database of putative functional links between proteins
JC Mellor et al.
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The KEGG databases at GenomeNet
M Kanehisa et al.
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Gene Expression Omnibus: NCBI gene expression and hybridization array data repository
R Edgar et al.
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Automatic clustering of orthologs and in-paralogs from pairwise species comparisons
M Remm et al.
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The Stanford Microarray Database
G Sherlock et al.
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STRING: a web-server to retrieve and display the repeatedly occurring neighbourhood of a gene
B Snel et al.
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EcoGene: a genome sequence database for Escherichia coli K-12
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