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Open Access Research article

Profiling and metaanalysis of epidermal keratinocytes responses to epidermal growth factor

Miroslav Blumenberg

Author Affiliations

The R. O. Perelman Department of Dermatology, Department of Biochemistry and Molecular Pharmacology, and the NYU Cancer Institute, NYU Langone Medical Center, 10016, New York, NY, USA

BMC Genomics 2013, 14:85  doi:10.1186/1471-2164-14-85

Published: 8 February 2013

Additional files

Additional file 1: Table S1:

EGF regulated genes. Expression levels are given in Log2-transformed values. C denotes control, untreated, E the EGF-treated samples. Red colour identifies genes induced by EGF 2-fold or more, pink those induced 50% to 2-fold; bright green mark genes suppressed 2-fold or more, light green those suppressed 50% to 2-fold. We also show the maximum level of expression, and the maximum, minimum and average levels of regulation. In the second spreadsheet of the Additional file 1: Table S1 only the genes regulated at least 50% are listed, the unselected genes are not.

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Additional file 2: Table S3:

EGF regulated genes in specific ontological categories regulated by EGF at early time points, 1 and 4 h. a-f EGF induced genes. g-k EGF suppressed genes. For details, please see the main text. Note that many genes belong to multiple categories.

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Additional file 3: Table S4:

EGF regulated genes in ontological categories regulated by EGF at late time points, 24 and 48 h. a-f EGF-induced genes. g-i EGF-suppressed genes.

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Additional file 4: Table S5:

Numbers of genes in analyzed lists. These lists were submitted to the Lists2Networks program. Results of analyses are given in Figures 2 and 4, Tables 5 and 7.

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Additional file 5: Table S2:

Clustering of categories of EGF regulated genes. DAVID algorithm identifies ontological and other categories that have statistically significant overlaps of gene lists; this usually folds redundant categories into easy-to-interpret clusters. Only clusters with highest enrichment scores are presented, and in each cluster only the top 2–3 categories. Count columns give the number of genes in each category, % the percentage of submitted genes that belong to that category, p-values the statistical value of each category (see e.g., Table 2 in the main text), while the enrichment score of a cluster gives the statistical significance of the overlaps of gene lists

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