{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["John McMullan"],"organism":["Homo sapiens"],"software":["MicroArraySuite 5.0"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MEXP-1512"],"description":["In this analysis we have used gene expression measurements form human bronchial epithelial cells following exposure to whole cigarette smoke."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Hybridization - Title: Affymetrix Generic Hybridization. Description:","Labeling - Title: Affymetrix in vitro transcription. Description:","Sample Processing - Cell cultures were exposed to mainstream cigarette smoke, from 2R4F University of Kentucky reference cigarettes, using a purpose-designed exposure system. Smoke was drawn from the cigarettes under ISO standard conditions (35ml puff drawn over 2 seconds every 1 minute) and diluted in filtered air using an RM20s smoke engine (Borgwaldt Technik GmbH, Hamburg, Germany). Diluted smoke (1:300 smoke:air, v:v) or filtered air (controls) was continually delivered to exposure chambers containing the culture inserts for a period of 1h. Following a 23 hour recovery period, cells cultures were solubilised in 150ul of Trizol (Invitrogen, Paisley, Scotland) per insert.","Nucleic Acid Extraction - Cells were lysed in 150ul of Trizol (Invitrogen, Paisley, Scotland) per insert, following manufacturer's protocol. The crude extraction was purified using RNeasy clean-up protocol (Qiagen).<br>(Parameters: Extracted product = total_RNA, Amplification = none)","Growth Protocol - Primary human bronchial epithelial cells were purchased from Cambrex (Walkersville, MD, USA). Cells at passage 2 were seeded into cell culture inserts (Transwell-ClearTM, 6.5mm diameter, 0.4uM pore size; Corning) with 100ul of 0.5 x 105 cells in Bronchial Epithelial Growth Medium (BEGM, Cambrex) per insert and 500ul of basal medium. The following day the apical medium was removed such that the cells were at an air-liquid interface. The basal medium was replaced with 300ul of 50% Bronchial Epithelial Basal Medium (BEBM, Cambrex) in Dulbecco<br>(Parameters: time unit = seconds, temperature unit = C)"],"figure_sub":["MIAME Score","Raw Data","Organization","Assays and Data","MAGE-TAB Files","Array Designs"],"data_protocol":["Assay Data Transformation - Title: Affymetrix CHP Analysis (ExpressionStat). Description:","Feature Extraction - Title: Affymetrix CEL analysis. Description:"],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"study_type":["transcription profiling by array"],"species":["Homo sapiens"],"pubmed_title":["Biplot methodology in exploratory analysis of microarray data"],"pubmed_authors":["Gardner-Lubbe S, le Roux NJ, Maunders H, Shah V and Patwardhan S","John McMullan"],"additional_accession":[]},"is_claimable":false,"name":"Transcription profiling of human bronchial epithelial cells following exposure to whole cigarette smoke","description":"In this analysis we have used gene expression measurements form human bronchial epithelial cells following exposure to whole cigarette smoke.","dates":{"release":"2009-03-11T00:00:00Z","modification":"2021-09-28T10:59:49Z","creation":"2021-09-28T10:59:49Z"},"accession":"E-MEXP-1512","cross_references":{"EFO":["EFO_0002768"],"doi":["10.1002/sam.10038"]}}