{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Shinkichi Ishikawa"],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-14782"],"description":["Human Pulmonary Alveolar Epithelial Cells (HPAEpiCs) purchased from ScienCell Research Laboratories were cultured at the air-liquid interface (ALI) for 28 days with medium containing Y-27632, A-83-01, and CHIR99021. The gene expression profile of HPAEpiCs was investigated on ALI day 28 by Fixed RNA Profiling."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - HPAEpiCs on ALI day 28 were washed with PBS, incubated in 0.25% trypsin-EDTA, detached from the inserts, and separated by pipetting. Trypsinization was stopped by adding Dulbecco’s Modified Eagle’s Medium supplemented with 10% fetal bovine serum. The cell suspension was then centrifuged, washed, and passed through a 40 µm Flowmi cell strainer (Bel-Art Products, Wayne, NJ, USA). The obtained cells were fixed with 4% formaldehyde in PBS, and subsequently treated with the Quenching Buffer and Enhancer contained in a Chromium Next GEM Single Cell Fixed RNA Sample Preparation Kit (10x Genomics).","Library Construction - Isolated single cells were loaded onto a 10x Chromium X (10x Genomics), barcoded, and pre-amplified to construct the sequencing library.","Sequencing - The library was sequenced on a DNBSEQ-G400 platform (MGI Tech).","Nucleic Acid Extraction - Cell barcoding, amplification, and library construction were performed using a Chromium Fixed RNA Profiling Reagent Kit (10x Genomics) in accordance with the manufacturer's protocol."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - The sequenced reads were subjected to demultiplexing, alignment, barcode counting, UMI counting, and filtering using Cell Ranger (version 7.1.0; 10x Genomics). The human genome (GRCh38-2020-A) was used as a reference to align the reads."],"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["DNBSEQ-G400"],"study_type":["RNA-seq of coding RNA from single cells"],"species":["Homo sapiens"],"pubmed_authors":["Shinkichi Ishikawa"],"additional_accession":[]},"is_claimable":false,"name":"Fixed RNA Profiling of HPAEpiCs Cultured at the ALI","description":"Human Pulmonary Alveolar Epithelial Cells (HPAEpiCs) purchased from ScienCell Research Laboratories were cultured at the air-liquid interface (ALI) for 28 days with medium containing Y-27632, A-83-01, and CHIR99021. The gene expression profile of HPAEpiCs was investigated on ALI day 28 by Fixed RNA Profiling.","dates":{"release":"2026-01-01T00:00:00Z","modification":"2026-01-01T02:02:03.17Z","creation":"2025-01-27T20:39:24.852Z"},"accession":"E-MTAB-14782","cross_references":{"ENA":["ERP168680"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005684","EFO_0005518","EFO_0003816","EFO_0004184"]}}