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Sci. Signal., 9 December 2008
[DOI: 10.1126/scisignal.1163630]

Supplementary Materials for
Analysis of Metagene Portraits Reveals Distinct Transitions During Kidney Organogenesis

Igor F. Tsigelny,1,2*† Valentina L. Kouznetsova,3 Derina E. Sweeney,3 Wei Wu,3 Kevin T. Bush,3 Sanjay K. Nigam3,4,5,6*

1Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 920930505, USA.

2San Diego Supercomputer Center, University of California, San Diego, La Jolla, CA 920930505, USA.

3Department of Medicine, School of Medicine, University of California, San Diego, La Jolla, CA 920930693, USA.

4Department of Pediatrics, School of Medicine, University of California, San Diego, La Jolla, CA 920930693, USA.

5Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA 920930693, USA.

6John and Rebecca Moores UCSD Cancer Center, School of Medicine, University of California, San Diego, La Jolla, CA 920930693, USA.

†These authors contributed equally to this work.

This PDF file includes:

  • Fig. S1. Process of obtaining measurements of glomeruli and tips from morphological images.
  • Fig. S2. Three entropy profiles calculated from SOMs with different map resolutions: 16 15, 26 25, and 36 35 tiles.
  • Fig. S3. Legend for network shapes and relationships presented in Figs. 4 and 5 (using IPA from Ingenuity Systems, www.ingenuity.com, with permission).
  • Fig. S4. Schematic of generation of SOMs, entropy calculations, correlations, and network analysis.
  • Fig. S5. Robustness of SOM clustering.
  • Table S1. List of genes with high correlation coefficients (>0.85) between expression profiles and glomerular density values during kidney development.
  • Table S2. Preliminary analysis of gene expression by RT-PCR.

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Technical Details

Format: Adobe Acrobat PDF

Size: 938 KB

Other Supplementary Material for this manuscript includes the following:

  • Table S3. Affymetrix probe IDs of the genes found in each of the 650 metagene tiles.

[Download Excel File]

Technical Details

Format: Microsoft Excel

Size: 398 KB (compressed); 2,215 KB (decompressed)

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*To whom correspondence should be addressed. E-mail: snigam{at}ucsd.edu (S.K.N.) and itsigeln{at}ucsd.edu (I.F.T.)

Citation: I. F. Tsigelny, V. L. Kouznetsova, D. E. Sweeney, W. Wu, K. T. Bush, S. K. Nigam, Analysis of metagene portraits reveals distinct transitions during kidney organogenesis. Sci. Signal. 1, ra16 (2008).

© 2008 American Association for the Advancement of Science


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