{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Martin Leonard"],"instrument_platform":["DNBSEQ-G400","MagNA lyser","RNeasy mini kit","Agilent 2100 Bioanalyzer."],"study_type":["RNA-seq of coding RNA"],"organism":["Mus musculus"],"species":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-17021"],"description":["The experiment was designed to evaluate the airway mucosal response to sequential exposure of diesel exhaust particles (DEP) followed by house dust mite allergen (HDM) with an interval of 24hrs."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - Total RNA from Lung tissue was analysed for integrity and purity using an Agilent 2100 Bioanalyzer. Samples with an RNA integrity number (RIN) above 7.0 were processed for cDNA library construction.","Nucleic Acid Extraction - RNeasy mini kit (Qiagen, Valencia, CA) according to the manufacturers protocol. RNA quantity and purity were determined using nanodrop (ThermoFisher Scientific, UK) and those samples with A260/A280 and A260/A230 ratios of between 1.8 – 2.2 and 1.5 – 2.2 respectively were selected to proceed with RNA-seq.","Sequencing - cDNA libraries underwent paired end (150PE) sequencing for transcriptomic analysis using the DNBseq platform (BGI Genomics, HK). 20 million clean reads for each sample were trimmed to remove remaining adapters and other variable sequences, followed by gene level annotation using the Mm39 reference genome builds using CLC Genomics Workbench software (CLCBIO, Aarhus, Denmark).","Sample Collection - Bronchoalveolar lavage (BAL) was performed after tracheal catheterisation using three washes of 500 µl ice-cold sterile PBS. Lung tissue was subsequently removed, washed in sterile PBS. 25mg of lung tissue (post BAL procedure) was homogenised in RLT buffer (RNeasy mini kit from Qiagen; Cat # 74134) using MagNA lyser bead disruption (Roche Diagnostics, West Sussex, UK) and passed through a QIAShredder column (Qiagen; Cat # 79656)."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Martin Leonard"],"additional_accession":[]},"is_claimable":false,"name":"RNA-SEQ of mouse lung tissue exposed to pollutant particles and house dust mite allergen","description":"The experiment was designed to evaluate the airway mucosal response to sequential exposure of diesel exhaust particles (DEP) followed by house dust mite allergen (HDM) with an interval of 24hrs.","dates":{"release":"2026-09-01T00:00:00Z","modification":"2026-09-01T01:00:38.394Z","creation":"2026-05-06T13:41:18.245Z"},"accession":"E-MTAB-17021","cross_references":{"ENA":["ERP193091"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005518","EFO_0003738","EFO_0004184"]}}