{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Lisa DUGAST"],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15460"],"description":["CD8 T cells from blood from four healthy volunteers was analysed for several markers by CITEseq and single cell RNAseq."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - Single cell libraries were performed according to Chromium Next GEM Single Cell 5' Reagent Kits v2 protocol (10X genomics, San Francisco, CA).","Nucleic Acid Extraction - Disintegration of cells or tissues (cell lysis), inactivation of intracellular nucleases, and separation of nucleic acids from the other cell components","Sequencing - Cell suspension were loaded onto chromium single cell chip K in 4 different well (20 000 cells per well) and run immediately on the Chromium controller (10X genomics, San Francisco, CA). Three libraries were prepared: one for mRNA (RNA), one for barcoded antibodies (HTO and CITE-seq) and one for TCR (VDJ-seq). They were sequenced with NovaSeq 6000 (Illumina, San Diego, CA) according to 10X genomics recommendations.","Sample Collection - Freshly sorted CD8+ T lymphocytes of four healthy volunteers were labelled with anti-human Hashtag antibodies TotalSeq-C (Biolegend, San Diego, CA) and were pooled together."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - FASTQ files, first generated from BaseCalling (BCL) files with CellRanger package (6.1.2), were demultiplexed and aligned to human reference genome (hg38). CITE-seq-Count function (1.3.4) was used to count antibody hashtag sequences. Count matrixes were analyzed with Seurat R package (4.1.1). Cells with more than 10% of mitochondrial genes were excluded. Gene expression was log normalized and scaled. HTO expression was normalized and demultiplexed. Doublet cells and negative cells for HTO were removed."],"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["RNA-seq of coding RNA from single cells"],"species":["Homo sapiens"],"pubmed_authors":["Lisa DUGAST","Carole GUILLONNEAU"],"additional_accession":[]},"is_claimable":false,"name":"CD8 T cells single cell transcriptomic analysis from human blood","description":"CD8 T cells from blood from four healthy volunteers was analysed for several markers by CITEseq and single cell RNAseq.","dates":{"release":"2025-09-01T00:00:00Z","modification":"2025-09-01T08:19:16.083Z","creation":"2025-08-15T10:50:36.531Z"},"accession":"E-MTAB-15460","cross_references":{"ENA":["ERP178813"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005684","EFO_0005518","EFO_0003816","EFO_0004184"]}}