About ChipInspector

Discover the real power of your microarray data

About

ChipInspector extracts significant information right from the expression level of single probes from microarrays. Sophisticated analysis techniques and state-of-the-art genomic knowledge dramatically increase the number of significant features while simultaneously reducing false positive rates by an order of magnitude. ChipInspector has been shown to deliver useful results even from several years old formalin-fixed paraffin-embedded prostate cancer specimens, as shown in this Nature Group Publication.

Start with your existing raw chip data to see what is really behind it.

ChipInspector uses the world's largest database of alternative transcripts and promoters to achieve superior signal-noise ratios in microarray analysis. It is unique in removing statistical and gene calling errors right at single probe level. This technology provides the basis for unmatched accuracy in significance analysis of microarray data.

55% false positives

ChipInspector features:

uses single probe expression levels as input
reduces false positive rates by about an order of magnitude
eliminates normalization/interpolation problems
increases the number of significant features
supports Affymetrix CEL files (other platforms possible)
assigns probes correctly to transcripts and genes
accounts for alternative transcripts
direct transcript view with probe mapping
applies state-of-the-art genomic knowledge
extracts new information by mining previous microarray experiments
results are directly usable as input for BiblioSphere PathwayEdition

<3% false positives

An example experiment with very good results based on Affymetrix probe set analysis. A SAM analysis with a false positive rate of 0.2 % yields an experiment specific network with 14 genes linked to four pathways. But some key genes known to be involved remain unconnected to observed pathways.

Re-evaluation of the identical experiment with ChipInspector on single probe level allows a SAM analysis with a false positive rate of 0.002%. The identical network analysis as above now shows 35 significantly regulated genes joined and linked to 31 pathways. All known key genes are included in the network.