{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Charlotta Böiers"],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15256"],"description":["CD34+ hematopoietic stem and progenitor cells (HSPCs) were purified from two Carnegie stage 22 fetal liver donors and processed using the 10X Genomics single cell ATAC-seq platform."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - Human FLs were donated from elective terminations of pregnancy with informed consent and approval of the Regional Ethics Review Board (Lund)/the Swedish Ethical Review Authority and the Swedish National Board of Health and Welfare. Embryos were staged according to Carnegie staging. FL tissues were dissociated mechanically and frozen in StemCellBanker (Amsbio) or fetal bovine serum (FBS) with 10% dimethyl sulfoxide (DMSO, Sigma). The cells were frozen down in FBS with 10% DMSO and stored at −150°C until use.","Nucleic Acid Extraction - LIN-CD45+CD34+ cells were sorted for scATAC-seq using a BD FACSAria IIu. Single cell ATAC-seq was performed using the 10X Genomics single cell ATAC-seq platform according to the manufacturer’s instructions.","Library Construction - Single cell ATAC-seq was performed using the 10X Genomics single cell ATAC-seq platform according to the manufacturer’s instructions.","Sequencing - After library preparation the libraries were sequenced on a NOVAseq (Illumina)."],"figure_sub":["MIAME Score","Organization","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - The FL data was run through Cell Ranger ATAC, using the human reference genome GRCh38 for alignment. Fragments for individual FL donors were extracted using Signac's Splitfragments function.","Sequence Alignment - The sequencing reads were mapped to the human reference genome (GRCh38)."],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["scATAC-seq"],"species":["Homo sapiens"],"pubmed_title":["A fetal-specific chromatin accessibility profile shapes lineage promiscuity in hematopoietic stem and progenitor cells"],"pubmed_authors":["Sara Palo, Keiki Nagaharu, Mikael Sommarin, Rasmus Olofzon, Virginia Turati, Shamit Soneji, Göran Karlsson and Charlotta Böiers","Charlotta Böiers"],"additional_accession":[]},"is_claimable":false,"name":"Single cell ATAC-seq of human first trimester fetal liver hematopoietic cells","description":"CD34+ hematopoietic stem and progenitor cells (HSPCs) were purified from two Carnegie stage 22 fetal liver donors and processed using the 10X Genomics single cell ATAC-seq platform.","dates":{"release":"2026-08-14T00:00:00Z","modification":"2026-08-14T15:34:48.399Z","creation":"2025-06-23T13:49:11.033Z"},"accession":"E-MTAB-15256","cross_references":{"EFO":["EFO_0002944","EFO_0004170","EFO_0010891","EFO_0004917","EFO_0005518","EFO_0003816","EFO_0004184"]}}