{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Phaewa Chaiwijit"],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15054"],"description":["We characterized the different cell types and their differential gene expression at days 10 and 13 of maturation in 2D cortical brain models."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - The iPSC-derived brain cells were trypsinized and dissociated using 0.5% trypsin in PBS, and then resuspended in 0.04% BSA in PBS. A 40-μm strainer was used to remove cell debris and clumps, to obtain single-cell suspension.","Library Construction - Single-cell transcriptomic libraries were generated following the Chromium Single-cell 5' Reagent Kits V2 User Guide.","Nucleic Acid Extraction - Nucleic acids were extracted following the 10x Genomics Chromium Single Cell 5' Reagent Kits v2 User Guide, up to the cDNA synthesis step. After GEM (Gel Bead-in-Emulsion) generation and reverse transcription, emulsions were broken, and barcoded cDNA was purified using silane magnetic beads, according to the manufacturer’s instructions, with a target recovery of 10,000 cells per sample.","Sequencing - Sequencing libraries were generated from 10x Genomics 5' cDNA and sequenced on an Illumina HiSeq X Ten platform. The library from 10-day-old human iPSC-derived brain cells was sequenced across one-third of three lanes, while the library from 13-day-old human iPSC-derived brain cells was sequenced across one-third of a single lane."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - Read alignment was performed using Cell Ranger (v6.1.2) against the human reference genome GRCh38. The pipeline generated filtered output matrices, including the gene-barcode matrix (matrix.tsv.gz), corresponding cell barcodes (barcodes.tsv.gz), and gene features (features.tsv.gz)."],"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina HiSeq X"],"study_type":["RNA-seq of coding RNA from single cells"],"species":["Homo sapiens"],"pubmed_authors":["Varodom Charoensawan","Nithi Asavapanumas","Phaewa Chaiwijit","Arunee Thitithanyanont"],"additional_accession":[]},"is_claimable":false,"name":"Identifying GFAP-Expressing Cell Susceptibility to SARS-CoV-2 Infection using Human iPSC-derived neural cells","description":"We characterized the different cell types and their differential gene expression at days 10 and 13 of maturation in 2D cortical brain models.","dates":{"release":"2026-02-17T00:00:00Z","modification":"2026-02-17T08:32:41.716Z","creation":"2025-04-17T10:57:46.431Z"},"accession":"E-MTAB-15054","cross_references":{"ENA":["ERP171770"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005684","EFO_0005518","EFO_0003816","EFO_0004184"]}}