Correction: A DNA microarray survey of gene expression in normal human tissues

  • Radha Shyamsundar1, 2,

    Affiliated with

    • Young H Kim1,

      Affiliated with

      • John P Higgins1,

        Affiliated with

        • Kelli Montgomery1,

          Affiliated with

          • Michelle Jorden1,

            Affiliated with

            • Anand Sethuraman3,

              Affiliated with

              • Matt van de Rijn1, 2,

                Affiliated with

                • David Botstein3, 5,

                  Affiliated with

                  • Patrick O Brown2, 4Email author and

                    Affiliated with

                    • Jonathan R Pollack1Email author

                      Affiliated with

                      Genome Biology20056:404

                      DOI: 10.1186/gb-2005-6-9-404

                      Published: 19 August 2005

                       

                      We wish to report two corrections to our study [1], neither of which alters the interpretation of the data or the conclusions drawn. First, we have discovered that the data file from a microarray hybridization (prostate RNA versus normal genomic DNA) used to derive the plot in Figure 4a became corrupted during data processing. The corrected plot (Figure 4a) displays a stronger correlation between directly and indirectly estimated transcript levels, indicating even better performance of our method of estimating transcript abundance. The corrected data file has been deposited to the Stanford Microarray Database (SMD) and Gene Expression Omnibus (GEO) repositories. Second, we have identified a 'frame-shift' in the Additional data file 2 (Sheet 5) data set; the corrected data file has been deposited to the supplemental site.
                      http://static-content.springer.com/image/art%3A10.1186%2Fgb-2005-6-9-404/MediaObjects/13059_2005_Article_1034_Fig1_HTML.jpg
                      Figure 4

                      Estimating relative transcript abundance. (a) Comparison of transcript levels estimated either directly by hybridization of prostate sample mRNA versus normal female genomic DNA, or indirectly by multiplying the ratio of prostate sample mRNA versus common reference mRNA by the ratio of common reference mRNA versus normal female genomic DNA. The correlation value (R) is indicated. (b) Prostate-specific gene expression cluster, extracted from the hierarchical cluster shown in Figure 1a, displayed as mean-centered relative gene expression (ratio-fold change scale indicated). (c) The same gene expression feature as in (b), now displayed as transcript abundance (relative to the average transcript level for all expressed genes), calculated indirectly using the common reference mRNA versus normal female genomic DNA hybridization data.

                      Additional data files

                      Additional data file 2 contains a corrected list of the variably expressed genes.

                      Declarations

                      Authors’ Affiliations

                      (1)
                      Department of Pathology, Stanford University
                      (2)
                      Department of Biochemistry, Stanford University
                      (3)
                      Department of Genetics, Stanford University
                      (4)
                      Howard Hughes Medical Institute, Stanford University
                      (5)
                      Lewis-Sigler Institute for Integrative Genomics, Princeton University

                      References

                      1. Shyamsundar R, Kim YH, Higgins JP, Montgomery K, Jorden M, Sethuraman A, van de Rijn M, Botstein D, Brown PO, Pollack JR: A DNA microarray survey of gene expression in normal human tissues. Genome Biol 2005, 6:R22.View ArticlePubMed

                      Copyright

                      © BioMed Central Ltd 2005

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