Skip to main content
Figure 4 | BMC Bioinformatics

Figure 4

From: Sample phenotype clusters in high-density oligonucleotide microarray data sets are revealed using Isomap, a nonlinear algorithm

Figure 4

Isomap analysis of the high throughput screening data set U133A arrays. Two-dimensional Isomap models were generated from 86 human U133A high density oligonucleotide arrays with 22,283 genes on each array as described in Systems and Methods. Panel A shows an overview map of the Isomap model. Arrows point to the directions of the monocytic and granulocytic differentiation. Panels B, C , and D are zoomed in regions of panel A. Panel E shows Isomap analysis of the monocytic and neutrophilic differentiation markers as described in Systems and Methods. Neighborhood size k: = 4. Panel F shows the residual variance after the application of Isomap, MDS, and PCA models. Abbreviations of compounds and cell types are listed in Table 1 and 2, respectively. See text for more detail.

Back to article page

BMC Bioinformatics

ISSN: 1471-2105

Contact us