Microarrays and other new technologyGene Expression Profiling Reveals Stromal Genes Expressed in Common Between Barrett’s Esophagus and Adenocarcinoma
Section snippets
Samples and RNA Isolation
Unselected patients scheduled for endoscopic evaluation for Barrett’s esophagus or esophageal adenocarcinoma were enrolled to participate in the study. Biopsy specimens were obtained according to the Seattle protocol using a standard esophagogastroduodenoscope (Olympus GIF-XV10; Center Valley, PA) and biopsy forceps (Radial Jaw 3; Boston Scientific Corp, Natick, MA). Four biopsy specimens each were obtained from normal-appearing esophagus (proximal to Barrett’s esophagus), salmon-colored
Human Subjects and Cell Lines
Gene expression was evaluated for endoscopically derived tissues obtained from Barrett’s esophagus, esophageal adenocarcinoma, normal esophagus, and duodenum for 17 subjects (Table 1). One of 14 patients (sample 673) with Barrett’s esophagus exhibited high-grade dysplasia. Samples from Barrett’s esophagus adjacent to the tumor mass were obtained from 2 patients (samples B-1 and B-6).
Gene expression profiles were also determined for esophageal adenocarcinoma and squamous carcinoma cell lines.
Discussion
The expanded genome-wide coverage available with current microarrays was applied to normal, metaplastic, and neoplastic tissues. The resultant gene expression profiles were able to distinguish Barrett’s esophagus, duodenum, normal esophagus, and esophageal adenocarcinoma from each other. For 2 patients, the samples were apparently misclassified. Barrett’s esophagus is often heterogeneous, and because the pathology was inferred from an adjacent biopsy specimen, variations based on sampling error
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Supported by National Institutes of Health grants R01 DK063624 (to A.W.L., G.T., and M.B.O.) and P30 DK56339 (Stanford Digestive Disease Center).