Sample Set Annotation Tool: Functional classes of bronchial mucosa genes that are differentially expressed in asthma

Study Design
Assay
Sample Info
Files
Info
Samples
Group Sets
Analysis

Purpose

Asthma pathogenesis and susceptibility involves a complex interplay between genetic and environmental factors.We report the results of expression microarray studies using tissue obtained from bronchial biopsies of healthy controls and of subjects with allergic asthma, both before and following inhaled corticotherapy.

Hypothesis

Transcriptional profile in bronchial biopsies between healthy and asthmatic individual differs and implicate novel genes and genes previously known to play a role in asthma.

Experimental Design

Four healthy subjects (2 men and 2 women) without a history of allergy or asthma and four asthmatics (all women) meeting the criteria of the American Thoracic Society for the diagnosis of asthma were recruited to the study. Microarray expression studies were performed using Affymetrix HG-U95Av2 GeneChips.

Experimental Variables

Asthma

Controls

4 healthy subjects

Methods

Biopsies were obtained from the sub-segmental and segmental bronchial carinae of the lower (3–5 biopsies) and upper (1–2 biopsies) lobes, as well as the lobar carinae of the middle (2 biopsies) and upper (1–2 biopsies) lobes to provide adequate samples of the large airways (3rd to 5th bronchial generation). When bronchoscopy was repeated after ICS treatment, biopsies were taken from the left lung at similar bronchial levels. The samples were mechanically homogenized (Rotor/Stator homogeniser, PowerGen) and total RNA was extracted using the RNEasy kit (Qiagen) according to the manufacturer's instructions.

Additional Information

Expected Samples:

12 Samples Loaded: 12

Species

Human (Homo sapiens)

Sample Source

Bronchial biopsies

Disease

Asthma

Treatment Protocol

Growth Protocol

Extraction Protocol

The samples were mechanically homogenized (Rotor/Stator homogeniser, PowerGen) and total RNA was extracted using the RNEasy kit (Qiagen) according to the manufacturer's instructions.

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	Age	Gender	tissue	group	Sample Title
GSM397588	adult	male	lung	control	BL005
GSM397589	adult	female	lung	control	BL121
GSM397590	adult	female	lung	control	BL136
GSM397591	adult	male	lung	control	BL150
GSM397592	adult	female	lung	allergic asthma	BL120

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File
GSE15823_v1.csv Sample Set Spreadsheet
GSE15823_v1.csv Sample Set Spreadsheet

Samples Viewer / Editor

All fields are editable except the "Sample ID" column. To edit a cell, click within the cell. To edit a "date" cell, click on the calendar icon. To cancel an edit, press the ESC key.

Sample ID	Age	Gender	Tissue	Group	Sample Title
GSM397588	adult	male	lung	control	BL005
GSM397589	adult	female	lung	control	BL121
GSM397590	adult	female	lung	control	BL136
GSM397591	adult	male	lung	control	BL150
GSM397592	adult	female	lung	allergic asthma	BL120
GSM397593	adult	male	lung	allergic asthma	BL126
GSM397594	adult	female	lung	allergic asthma	BL151
GSM397595	adult	female	lung	allergic asthma	CLE264
GSM397596	adult	female	lung	allergic asthma_treatment	BL305
GSM397597	adult	male	lung	allergic asthma_treatment	BL306
GSM397598	adult	female	lung	allergic asthma_treatment	BL307
GSM397599	adult	female	lung	allergic asthma_treatment	BL308

Group Sets View in Gene Expression Browser

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Module Analysis

Group Set
All Samples
Group

SIDRA