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Expertise in Gene Discovery, Microarray Development and Bioinformatics SETAC 29 th  Annual Meeting November 16th-20th Tampa, FL EcoArray, Inc. www.ecoarray.com
EcoArray Bioinformatics ,[object Object],[object Object],[object Object],[object Object],[object Object]
GeneSpring GX ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Boxplots
Principal components analysis (PCA) Quality control
Histograms
Profile and Scatter Plots
Filter by Expression
Multiple pair-wise comparison Volcano plot ANOVA Venn Diagram
Basic/Advanced Statistics Now what?  We can do the analysis  for you . Advanced Basic ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],(optional) ,[object Object],[object Object],[object Object],[object Object]
Fold Changes >=2.0
Fold Changes >=2.0
Cluster Analysis ,[object Object],[object Object],[object Object],[object Object],Uncover interesting patterns
 
Prediction Model Goal:  To build a robust model to predict  known   phenotypic samples from gene expression data. unknown sample Predict gene expression characteristics
Building a Prediction Model 1) Validate , 2) Train, 3) Classify                   ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
GeneSpring GX network builder 1) Right click on edge, Source of supporting literature (ie.PubMed)   2) Locate sentence(s),
Confusion matrix Prediction results
Plug-in databases
Expertise in Gene Discovery, Microarray Development and Bioinformatics EcoArray, Inc. www.ecoarray.com Heather R. Hammers (Bioinformatician/Scientist) [email_address]

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Setac 2008 Genespring Ppt.