10.1371/journal.pmed.0030047.g002 Jen-Tsan Chi Jen-Tsan Chi Zhen Wang Zhen Wang Dimitry S. A Nuyten Dimitry S. A Nuyten Edwin H Rodriguez Edwin H Rodriguez Marci E Schaner Marci E Schaner Ali Salim Ali Salim Yun Wang Yun Wang Gunnar B Kristensen Gunnar B Kristensen Åslaug Helland Åslaug Helland Anne-Lise Børresen-Dale Anne-Lise Børresen-Dale Amato Giaccia Amato Giaccia Michael T Longaker Michael T Longaker Trevor Hastie Trevor Hastie George P Yang George P Yang Marc J van de Vijver Marc J van de Vijver Patrick O Brown Patrick O Brown Cell Type–Specific Hypoxia Response Public Library of Science 2013 hypoxia 2013-02-22 08:49:45 Figure https://plos.figshare.com/articles/figure/_Cell_Type_8211_Specific_Hypoxia_Response_/630388 <div><p>(A and B) Hierarchical clustering of a total of 5,432 array elements showing a cell type-specific hypoxia response that are selected by multiclass SAM using zero-transformed gene expression with a FDR of 3.7% (A). The orange vertical bar marks clusters of genes induced only in RPTECs and is expanded with the names of representative genes (B).</p> <p>(C) The number of genes (y-axis) with fold inductions greater than those indicated (x-axis) in all six hypoxic samples (6, 12, and 24 h at 2% and 0% O<sub>2</sub>) are shown for SMCs (SM, blue curve), HMECs (pink curve), and RPTEC#1 (orange curve).</p> <p>(D) Comparison of the gene expression pattern of VHL-reconstituted RCCs (A498 cells) to the hypoxia response of RPTEC#1. We compared the expression of genes affected by VHL reconstitution of VHL-deficient RCC A498 cells (from [<a href="http://www.plosmedicine.org/article/info:doi/10.1371/journal.pmed.0030047#pmed-0030047-b038" target="_blank">38</a>] and in the sample marked “VHL repression”) to the expression of those same genes in RPTEC#1 with hypoxia treatments (samples marked “RPTEC#1 hypoxia”). Genes showing concurrent induction (vertical red bar), concurrent repression (vertical green bar), and VHL-specific response (vertical black bar) are shown with selected gene names. (Complete data can be found at: <a href="http://microarray-pubs.stanford.edu/hypoxia" target="_blank">http://microarray-pubs.stanford.edu/hypoxia</a>)</p></div>