title: SEGEL: A Web Server for Visualization of Smoking Effects on Human Lung Gene Expression.
abstract: Cigarette smoking is a major cause of death worldwide resulting in over six million deaths per year. Cigarette smoke contains complex mixtures of chemicals that are harmful to nearly all organs of the human body, especially the lungs. Cigarette smoking is considered the major risk factor for many lung diseases, particularly chronic obstructive pulmonary diseases (COPD) and lung cancer. However, the underlying molecular mechanisms of smoking-induced lung injury associated with these lung diseases still remain largely unknown. Expression microarray techniques have been widely applied to detect the effects of smoking on gene expression in different human cells in the lungs. These projects have provided a lot of useful information for researchers to understand the potential molecular mechanism(s) of smoke-induced pathogenesis. However, a user-friendly web server that would allow scientists to fast query these data sets and compare the smoking effects on gene expression across different cells had not yet been established. For that reason, we have integrated eight public expression microarray data sets from trachea epithelial cells, large airway epithelial cells, small airway epithelial cells, and alveolar macrophage into an online web server called SEGEL (Smoking Effects on Gene Expression of Lung). Users can query gene expression patterns across these cells from smokers and nonsmokers by gene symbols, and find the effects of smoking on the gene expression of lungs from this web server. Sex difference in response to smoking is also shown. The relationship between the gene expression and cigarette smoking consumption were calculated and are shown in the server. The current version of SEGEL web server contains 42,400 annotated gene probe sets represented on the Affymetrix Human Genome U133 Plus 2.0 platform. SEGEL will be an invaluable resource for researchers interested in the effects of smoking on gene expression in the lungs. The server also provides useful information for drug development against smoking-related diseases. The SEGEL web server is available online at http://www.chengfeng.info/smoking_database.html.
authors.affiliation: Department of Pharmaceutical Science, College of Pharmacy, University of South Florida, Tampa, Florida, United States of America.
authors.forename: Yan
authors.initials: Y
authors.lastname: Xu
authors.affiliation: Department of Pharmaceutical Science, College of Pharmacy, University of South Florida, Tampa, Florida, United States of America.
authors.forename: Brian
authors.initials: B
authors.lastname: Hu
authors.affiliation: Department of Biology, Faculty of Mathematics and Natural Sciences, University of Cologne, Cologne, Germany.
authors.forename: Sammy S
authors.initials: SS
authors.lastname: Alnajm
authors.affiliation: Department of Pharmaceutical Science, College of Pharmacy, University of South Florida, Tampa, Florida, United States of America.
authors.forename: Yin
authors.initials: Y
authors.lastname: Lu
authors.affiliation: Department of Department of Epidemiology and Biostatistics, College of Public Health, University of South Florida, Tampa, Florida, United States of America.
authors.forename: Yangxin
authors.initials: Y
authors.lastname: Huang
authors.affiliation: Department of Pharmaceutical Science, College of Pharmacy, University of South Florida, Tampa, Florida, United States of America; Division of Allergy and Clinical Immunology, College of Medicine, University of South Florida, Tampa, Florida, United States of America.
authors.forename: Diane
authors.initials: D
authors.lastname: Allen-Gipson
authors.affiliation: Department of Pharmaceutical Science, College of Pharmacy, University of South Florida, Tampa, Florida, United States of America; Department of Department of Epidemiology and Biostatistics, College of Public Health, University of South Florida, Tampa, Florida, United States of America.
authors.forename: Feng
authors.initials: F
authors.lastname: Cheng
mesh_terms: D016208:Databases, Factual; D005786:Gene Expression Regulation; D006801:Humans; D008168:Lung / Q000473:pathology*; D008175:Lung Neoplasms / Q000235:genetics* / Q000473:pathology; D029424:Pulmonary Disease, Chronic Obstructive / Q000235:genetics* / Q000473:pathology; D012737:Sex Factors; D012907:Smoking / Q000009:adverse effects*; D012984:Software; D014584:User-Computer Interface; D064878:Web Browser