{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Tao Wang"],"instrument_platform":["Illumina HiSeq 4000"],"study_type":["RNA-seq of coding RNA"],"organism":["Homo sapiens"],"species":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-12142"],"description":["The mesoderm is important in driving pulmonary organogenesis. We described a new method for rapid producing pulmonary organoids from human induced pluripotent stem cells (iPSCs) by co-culturing anterior foregut endoderm (AFE) and mesoderm progenitors. The pulmonary organoids spontaneously formed within 14 days of the co-culturing. We measured gene expression on the pulmonary organoids and normal human iPSCs using RNAseq."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - Illumina TruSeq Stranded mRNA kit, according to the manufacturer’s protocol.","Sequencing - Sequenced paired end 76bp on HISEQ4000 at the Genomic Technologies Core Facility University of Manchester.","Nucleic Acid Extraction - The pulmonary organoids were first treated with Corning cell recovery solution (Corning, Deeside, UK) to recover cells, and then the total RNAs were extracted using TRIZOL and phenol-chloroform. Total RNA from iPSCs was extracted using the RNeasy Mini Kit (Qiagen).","Sample Collection - 4 iPSC lines used are: SOJD3, SEUR7, WT02C3 and WT02C9. nto anterior foregut endoderm and mesoderm progenitors. The two population of cells were imbedded in Matrigel and co-cultured in an insert of a 12 mm Transwell that was emerged in DMEM base medium supplemented with human serum replacement 3, BMP4, FGF2, FGF7, and FGF10. The medium was changes every 2-3 days and the pulmonary organoids spontaneously formed within 14 days of the co-culture. The pulmonary organoids were first treated with Corning cell recovery solution (Corning, Deeside, UK) to recover cells before nucleic RNA extraction. The induced pluripotent stem cells were cultured in Essential 8 Medium (Thermo Fisher Scientific)"],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Tao Wang","Rachel Scholey"],"additional_accession":[]},"is_claimable":false,"name":"RNAseq of iPSC derived pulmonary organoids by co-culturing endodermal and mesodermal progenitors","description":"The mesoderm is important in driving pulmonary organogenesis. We described a new method for rapid producing pulmonary organoids from human induced pluripotent stem cells (iPSCs) by co-culturing anterior foregut endoderm (AFE) and mesoderm progenitors. The pulmonary organoids spontaneously formed within 14 days of the co-culturing. We measured gene expression on the pulmonary organoids and normal human iPSCs using RNAseq.","dates":{"release":"2025-08-01T00:00:00Z","modification":"2025-08-02T00:01:51.265Z","creation":"2022-10-12T09:20:48.069Z"},"accession":"E-MTAB-12142","cross_references":{"ENA":["ERP141587"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005518","EFO_0003738","EFO_0004184"]}}