Microarray Data Analysis Solutions |
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commercial | free or open source
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BioMine (Gene Network Sciences), DNA microarray analysis package,
with flexible data import, normalization, several clustering algorithms, and more.
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GeneSight™ (Biodiscovery), user-friendly data analysis and data mining tool specifically designed for microarray data
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GeneSifter.net, web-based microarray data analysis, integrating statistics, biology, and ontology information.
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GeneSpring™ (Silicon Genetics), analytical workbench that enables scientists to visualize, organize and manipulate gene expression data
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Insightful S+ArrayAnalyzer®, features rigorous statistical analysis, interactive graphical reporting, publication quality output, and extensible development environment.
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Koadarray software for automated analysis and quantification of microarray images.
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MATLAB Bioinformatics Toolbox, provides access to genomic and proteomic data, analysis, and visualizations for sequences and microarrays.
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Probe Profiler, reduces variability of Affymetrix GeneChip data by analyzing consistency in behavior of the probe pairs and their prediction efficiency.
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Rosetta Resolver® Gene Expression Analysis System, includes tools and features for high-powered analysis, visualization and storage of gene expression data.
Free or Open Source
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NIH Microarray Consortium, providing NIH funded neuroscience investigators
with the opportunity to use gene expression profiling technology and SNP genotyping,
through acquisition and dissemination of high quality array based data.
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Bioconductor, R-based open source bioinformatics software, primarily for DNA microarrays.
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caArray suite of tools from NCI, including caWorkbench and webCGH.
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Expression Profiler, a set of tools for clustering, analysis and visualization of gene expression and other genomic data.
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FatiGO (Datamining with Gene Ontology) and other microarray tools.
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Free PubGene service, for analyzing gene expression data with literature network information.
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GenMAPP, software for visualizing gene expression data on maps representing biological pathways and groupings of genes.
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MAExplorer - MicroArray Explorer, (Java) exploratory environment for data mining across multiple microarrays.
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National Cancer Institute (NCI) Director's Challenge, toward a molecular classification of cancer. Provides analytic tools, datasets, and more.
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NIH Genomics and Bioinformatics group, offering microarray data and tools, gene ontology tools, and more.
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PAM, Prediction Analysis of Microarrays, and
SAM: Significance Analysis of Microarrays,
from Tibshirani's group (Stanford), available as Excel add-in or R-package.
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PermutMatrix, graphical software for clustering and seriation analysis, with several types of hierarchical cluster analysis and several methods to find an optimal reorganization of rows and columns.
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ProbeExplorer, an open access web-based bioinformatic application
for showing associations between microarray oligonucleotide
probes and transcripts in the genomic context.
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