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Data process
and analysis
 | Affymetrix
GeneChip Operating Software (GCOS) drives system operation, instrument
control, and data analysis for the GeneChip® platform. The software automatically acquires and processes
hybridization data. Analysis algorithms allow data review and
filtering, as well as produce comparisons, graphs, and reports. |
Affymetrix
User's Manuals
In addition to GCOS, various statistical softwares are available.
| DNA-Chip Analyzer (dChip)
is a software program that normalizes, standardizes, and detects outliers by
applying model-based expression analysis of
microarrays. It also conducts basic analysis procedures such as comparative
analysis and hierarchical clustering (Li and Wong
2001a). |
dChip
Discussion Board
dChip User's
Manual
SAM
Discussion Board
SAM User's Manual
| SAS is the software used to
perform high-level statistical analyses. It grants control of various
data- and/or analysis-related problems (e.g., unbalanced designs, corrections
for multiple testing). |
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EASE, the Expression Analysis Systematic Explorer,
statistically tests for significant
coregulation between results and the Gene Ontology (GO) Consortium systems:
Biological Process, Molecular Function, and Cellular Component as well as KEGG
Pathways. |
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Pathway Studio
Pathway Analysis Software helps in the interpretation of microarray data in
the context of pathways, gene regulation networks and protein interaction
maps. Readily classifies proteins and their interactions, draws pathway
diagrams and automatically updates pathways with new information. |
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