{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Maoxuan Lin"],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-16413"],"description":["This single cell RNA-seq experiment was performed to quantify DLL3 expression in circulating tumor cells in small cell lung cancer patients to predict response to tarlatamab treatment. CTCs enriched from the blood of three SCLC patients prior or post tarlatamab treatment using the CTC-iChip followed by magnetic depletion of RBCs were processed with the 10x Genomics Chromium platform (Chromium GEM-X Single Cell 3' Kit v4) and sequenced on a NextSeq 2000 system. Corresponding EGA study number: EGAS50000001401, EGA dataset number: EGAD50000002035"],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - CTCs were enriched from the blood of three SCLC patients using the CTC-iChip followed by magnetic depletion of RBCs.","Sequencing - Single cells were sequenced on a NextSeq 2000 system with P2 XLEAP-SBS chemistry, targeting 20,000 reads per cell.","Library Construction - The enriched samples were processed with the 10x Genomics Chromium platform (Chromium GEM-X Single Cell 3' Kit v4).","Nucleic Acid Extraction - Single cells lysed inside GEM droplets and mRNA captured on barcoded oligo-dT beads using 10x Genomics Chromium GEM-X Single Cell 3′ Kit v4."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - Raw 10x Genomics single-cell RNA-seq data (BCL/FASTQ files) were processed using the Cell Ranger pipeline (v9.0.1, 10x Genomics). FASTQ files were aligned to the GRCh38 reference genome (10x reference version GRCh38-2024-A) using the Cell Ranger count workflow with default parameters."],"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["CTC-iChip","10x Genomics Chromium platform","NextSeq 2000"],"study_type":["RNA-seq of coding RNA from single cells"],"species":["Homo sapiens"],"pubmed_authors":["Maoxuan Lin"],"additional_accession":[]},"is_claimable":false,"name":"single cell RNA-seq of microfluidic device enriched circulating tumor cells from small cell lung cancer patients prior or post tarlatamab treatment","description":"This single cell RNA-seq experiment was performed to quantify DLL3 expression in circulating tumor cells in small cell lung cancer patients to predict response to tarlatamab treatment. CTCs enriched from the blood of three SCLC patients prior or post tarlatamab treatment using the CTC-iChip followed by magnetic depletion of RBCs were processed with the 10x Genomics Chromium platform (Chromium GEM-X Single Cell 3' Kit v4) and sequenced on a NextSeq 2000 system. Corresponding EGA study number: EGAS50000001401, EGA dataset number: EGAD50000002035","dates":{"release":"2025-12-11T00:00:00Z","modification":"2026-05-27T16:14:21.538Z","creation":"2025-12-18T16:19:51.538Z"},"accession":"E-MTAB-16413","cross_references":{"EGA":["EGAD50000002035","EGAS50000001401"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005684","EFO_0005518","EFO_0003816","EFO_0004184"]}}