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Katherine J. Baines, PhD, BBiomedSci (Hons), Jodie L

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1 Transcriptional phenotypes of asthma defined by gene expression profiling of induced sputum samples 
Katherine J. Baines, PhD, BBiomedSci (Hons), Jodie L. Simpson, PhD, BSc (Hons), Lisa G. Wood, PhD, BSc (Hons), Rodney J. Scott, DSc, FRCPath, FHGSA, Peter G. Gibson, MBBS, FRACP  Journal of Allergy and Clinical Immunology  Volume 127, Issue 1, Pages e9 (January 2011) DOI: /j.jaci Copyright © 2010 American Academy of Allergy, Asthma & Immunology Terms and Conditions

2 Fig 1 Phenotypes identified from unsupervised hierarchical clustering analysis of gene expression profiles. In this approach the most similar expression profiles are joined together to form groups, and are represented here in a tree structure. The root of the tree consists of a single cluster containing all the observations, and the leaves correspond to individual sample profiles, showing 3 transcriptional phenotypes of asthma. Journal of Allergy and Clinical Immunology  , e9DOI: ( /j.jaci ) Copyright © 2010 American Academy of Allergy, Asthma & Immunology Terms and Conditions

3 Fig 2 Sputum inflammatory cells and gene expression in transcriptional asthma phenotypes and healthy controls. A, TAP1 had increased eosinophils. B, TAP2 had increased neutrophils. C, TAP1 and TAP2 had lower macrophages. TAP2 had increased gene expression of IL1R2 (D) and NFKB2 (E) determined by qPCR. Bars are represented as the median with the error bars as the interquartile range. ∗P < .05 vs healthy controls; #P < .05 vs TAP3. Journal of Allergy and Clinical Immunology  , e9DOI: ( /j.jaci ) Copyright © 2010 American Academy of Allergy, Asthma & Immunology Terms and Conditions

4 Fig 3 Heat map dendrogram of the 330 differentially expressed genes between TAPs, with red representing a higher level of gene expression and blue representing a lower level of gene expression. Each column represents the mean gene expression of the phenotypic group, with the fourth column the gene profile of healthy controls, closely related to TAP3. Journal of Allergy and Clinical Immunology  , e9DOI: ( /j.jaci ) Copyright © 2010 American Academy of Allergy, Asthma & Immunology Terms and Conditions

5 Hierarchical clustering dendrogram containing 227 differentially expressed genes between inflammatory asthma phenotypes. The dendrogram at the top of the figure represents the relationship between participants with eosinophilic (red branches), neutrophilic (maroon branches), and paucigranulocytic asthma (gray branches) and healthy controls (blue branches). The dendrogram on the left represents the relationship between the expression levels of each gene across all the samples. Journal of Allergy and Clinical Immunology  , e9DOI: ( /j.jaci ) Copyright © 2010 American Academy of Allergy, Asthma & Immunology Terms and Conditions

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