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TranscriptomicseQTL analysis of many thousands of expressed genes while simultaneously controlling for hidden factors
Motivation: Identification of eQTL, the genetic loci that contribute to heritable variation in gene expression, can be obstructed by factors that produce variation in expression profiles if these factors are unmeasured or hidden from direct analysis. Methods: We have developed a method for Hidden Ex...
ORGANISM(S): Homo sapiens 
2014-01-07 | E-GEOD-40364 | biostudies-arrayexpress
TranscriptomicsModulation of Cystatin A Expression in Human Airway Epithelium Related to Genotype, Smoking COPD and Lung Cancer
Cystatin A (gene: CSTA), is up-regulated in non-small-cell lung cancer (NSCLC) and dysplastic vs normal human bronchial epithelium. In the context that chronic obstructive pulmonary disease (COPD), a small airway epithelium (SAE) disorder, is independently associated with NSCLC (especially squamous ...
ORGANISM(S): Homo sapiens 
2012-06-19 | E-GEOD-22047 | biostudies-arrayexpress
TranscriptomicsRNA-Seq Quantification of the Transcriptome of Genes Expressed in the Small Airway Epithelium of Nonsmokers and Smokers
The small airway epithelium (SAE) the pseudostratified epithelium that covers the majority of the human airway surface from the 6th generation to the alveoli, is the major site of lung disease caused by smoking, and the cell population that exhibits the earliest manifestations of smoking-induced dis...
ORGANISM(S): Homo sapiens 
2012-03-05 | E-GEOD-27681 | biostudies-arrayexpress
TranscriptomicsThreshold of Biologic Response of the Small Airway Epithelium to Low Levels of Tobacco Smoke
Background: Healthy individuals exposed to low levels of cigarette smoke have a decrement in lung function and higher risk for lung disease compared to unexposed individuals. We hypothesized that healthy individuals exposed to low levels of tobacco smoke must have biologic changes in the small airwa...
ORGANISM(S): Homo sapiens 
2011-02-02 | E-GEOD-19667 | biostudies-arrayexpress
TranscriptomicsSmoking Dysregulates the Human Airway Basal Cell Transcriptome at COPD-linked Risk Locus 19q13.2
Rationale: Genome-wide association studies (GWAS) and candidate gene studies have identified a number of loci linked to susceptibility of chronic obstructive pulmonary disease (COPD), a smoking-related disorder that originates in the airway epithelium. Objectives: Since airway basal cell (BC) stem/p...
ORGANISM(S): Homo sapiens 
2014-05-08 | E-GEOD-47718 | biostudies-arrayexpress
TranscriptomicsBiologic Phenotyping of the Human Small Airway Epithelial Response to Cigarette Smoking
The first changes associated with smoking are in the small airway epithelium (SAE). Given that smoking alters SAE gene expression, but only a fraction of smokers develop chronic obstructive pulmonary disease (COPD), we hypothesized that assessment of SAE genome-wide gene expression would permit biol...
ORGANISM(S): Homo sapiens 
2011-10-26 | E-GEOD-11784 | biostudies-arrayexpress
TranscriptomicsPOU2AF1 Functions in the Human Airway Epithelium to Regulate Expression of Host Defense Genes [RNA-Seq]
In the process of seeking novel lung host defense regulators by analyzing genome-wide RNA sequence data from normal human airway epithelium, we detected expression of POU2AF1, a known transcription co-factor previously thought to be expressed only in lymphocytes. Lymphocyte contamination of human ai...
ORGANISM(S): Homo sapiens 
2016-03-02 | E-GEOD-60989 | biostudies-arrayexpress
TranscriptomicsPersistence of Smoking-induced Dysregulation of Small Airway Epithelium miRNA Expression Despite Smoking Cessation
Rationale: Even after quitting smoking, the risk of the development of chronic obstructive pulmonary disease (COPD) and lung cancer remains significantly higher compared to never-smokers. Objectives: Based on the knowledge that COPD and most lung cancers start in the small airway epithelium (SAE), w...
ORGANISM(S): Homo sapiens 
2015-11-23 | E-GEOD-53519 | biostudies-arrayexpress
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