|
| Status |
Public on Nov 21, 2006 |
| Title |
Identification of novel lung genes in bronchial epithelium by serial analysis of gene expression |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by SAGE
|
| Summary |
A description of the transcriptome of human bronchial epithelium should provide a basis for studying lung diseases including cancer. We demonstrate here that minute epithelial specimens obtained by bronchial brushings afford reliable profiling by serial analysis of gene expression (SAGE) leading to lung gene discovery. We have deduced global gene expression profiles of bronchial epithelium and lung parenchyma, based upon a vast data set of nearly two million sequence tags from 21 SAGE libraries generated from individuals with a history of smoking. Cluster and linear regression analysis demonstrate the repeatability and reproducibility of bronchial SAGE libraries, and suggest that the transcriptome of the bronchial epithelium is distinct from that of lung parenchyma and other tissue types. This distinction is highlighted by the abundant expression of signature genes that reflect tissue-specific and region-specific functions. Through our analysis we have identified novel bronchial-enriched genes and a novel transcript variant for surfactant, pulmonary-associated protein B in lung parenchyma. Conspicuously, gene expression associated with ciliogenesis is evident in bronchial epithelium. Additionally, it is noted that a large number of unmapped tags awaits further investigation.
This study represents a comprehensive delineation of the bronchial and parenchyma transcriptomes, identifying more than 20,000 known and hypothetical genes expressed in the human lung, constituting one of the largest human SAGE studies reported to date.
This SuperSeries is composed of the SubSeries listed below.
|
| |
|
| Overall design |
This reference Series links data in the following related Series:
GSE3707 Expression profiling of bronchial epithelium
GSE3708 Expression profiling of normal lung parenchyma
|
| |
|
| Contributor(s) |
Lonergan KM, Chari R, deLeeuw RJ, Shadeo A, Chi B, Tsao M, Jones S, Marra M, Ling V, Ng R, MacAulay C, Lam S, Lam WL |
| Citation(s) |
20682026 |
| Submission date |
Dec 06, 2005 |
| Last update date |
Aug 19, 2019 |
| Contact name |
Kim Marie Lonergan |
| E-mail(s) |
klonergan@bccrc.ca
|
| Phone |
604-675-8111
|
| Fax |
604-675-8185
|
| Organization name |
British Columbia Cancer Research Centre
|
| Department |
Cancer Genetics and Developmental Biology
|
| Lab |
Dr. Wan L Lam
|
| Street address |
675 West 10th Avenue
|
| City |
Vancouver |
| State/province |
British Columbia |
| ZIP/Postal code |
V5Z 1L3 |
| Country |
Canada |
| |
|
| Platforms (1) |
| GPL4 |
SAGE:10:NlaIII:Homo sapiens |
|
| Samples (21)
|
|
| This SuperSeries is composed of the following SubSeries: |
| GSE3707 |
Expression profiling of bronchial epithelium |
| GSE3708 |
Expression profiling of normal lung parenchyma |
|
| Relations |
| BioProject |
PRJNA93925 |
Less...
More...