Changes in transcriptome of native nasal epithelium expressing F508del-CFTR and intersecting data from comparable studies

Table 3 Summary of independent microarray experiments compared in the present study

Study	Material	Genotype/n	Platform
Clarke (this paper)	Native nasal epithelium (brushings)	5 CF (F508del homoz.) vs. 5 controls	Affymetrix Custom HsAirwaya520108F
Virella-Lowell et al., 2004 [16]¹	Isogenic bronchial cells (IB3-1 and S9)	F508del/W1282X vs. WT-CFTR corrected: 3 technical replicates each	Affymetrix U95Av2
Zabner et al., 2005 [17]¹	Primary tracheal and bronchial cell cultures	10 CF (F508del homoz.) vs. 10 controls	Affymetrix HGU-133A
Wright et al., 2006 [18]^1,3	Native nasal epithelium (brushings)	4 CF (F508del homoz.) vs. 12 controls	Affymetrix HGU-133A,B
Verhaeghe et al., 2007 [20]¹	Fetal tracheal cells (CFT-2 and NT-1)	F508del homoz. vs. WT-CFTR: 3 technical replicates each	Affymetrix HGU-133Plus2
Ogilvie et al., 2011 [19]²	Native bronchial (and nasal) epithelium (brushings)	F508del homoz. (in most cases) vs. controls: (8 vs. 15 bronchial; 20 vs. 16 nasal)	Illumina HumanRef-8 v1 Expression BeadChips

The table highlights the diversity of experimental design, materials and microarray platforms used in the five independent studies used for comparison with our data. ⁽¹⁾We used the genelists resulting from Hampton & Stanton’s 2010 [21] reanalysis of these four data sets for our comparison. ⁽²⁾For our preliminary comparison with this study we used the published genelist for bronchial samples only. For our secondary comparison we reanalysed the data from both bronchial and nasal samples. ⁽³⁾The gene list used here represents the “mild” CF samples from this study only.

ISSN: 1465-993X