Project description:Human colorectal cancer organoids were treated with the TROP2-targeting antibody-drug conjugate Sacituzumab Govitecan (SG) or non-targeting control IgG1-SN-38. Samples were harvested at different time points under treatment {0h, 3h, 6h, 9h, 12h} as well as after drug washout at 12 h on the following time points {12h + 12h, 12h + 36h, 12h + 60h}. Samples were subjected to single-cell RNA-seq using sample hashtag multiplexing.

2026-04-01 | E-MTAB-16843 | biostudies-arrayexpress

Multi-omics analysis of human bone marrow across fetal and adult stages informs strategies for in vitro B lymphopoiesis - scBCR-seq dataset

Project description:These samples are part of a study aimed at understanding B lymphopoiesis in the human bone marrow throughout the lifespan and guiding in vitro B lymphopoiesis. This dataset contains B cell receptor data from prenatal and adult bone marrow samples, as well as in vitro experiments, together with the corresponding raw data from prenatal bone marrow and in vitro samples.

2026-09-09 | E-MTAB-17239 | biostudies-arrayexpress

Single-cell RNA-seq of human primary pDCs before and after 24 h stimulation with TLR9 agonist cytosine-phosphate-guanine (CpG) oligodeoxynucleotide

Project description:Plasmacytoid dendritic cells (pDCs) are a rare immune cell population that plays a key role in antiviral innate immunity. In our analysis, secretin (SCT) emerged as one of the most highly expressed hormones in both circulating and tissue-resident pDCs. To validate this finding, we performed spatial transcriptomic analysis of adult tonsil tissue, which demonstrated co-localization of SCT transcripts with the pDC marker LILR4A. We further confirmed SCT expression at the protein level by immunofluorescence staining of primary human peripheral blood pDCs, showing co-expression of secretin with the canonical pDC markers CLEC4C and TLR9. In a longitudinal single-cell RNA-sequencing dataset from individuals with COVID-19, we observed modest upregulation of SCT in interferon-activated pDCs. To determine whether SCT expression is linked to immune function, we purchased primary human peripheral blood pDCs and stimulated them in vitro with the TLR9 agonist cytosine-phosphate-guanine (CpG) oligodeoxynucleotide, followed by single-cell transcriptomic profiling.

2026-05-22 | E-MTAB-16728 | biostudies-arrayexpress

RNA-seq of T cells form house dust mite mouse model of bronchoalveolar lavage (BAL), medLN and lung tissues

Project description:This dataset profiles T cells recovered from the airway lumen (bronchoalveolar lavage, BAL), medLN and lung tissues of mice exposed to house dust mite (HDM) allergen, a model of allergic airway inflammation. The aim of this experiment was to capture, at single-cell resolution, both the transcriptional states and the T cell receptor sequences (TCR) to identify T cell clones in the airway . The BAL data serve as an in vivo application of PhyloTrajectory and used to compare inferred trajectories with Dog Allergen model. Mouse was exposed to HDM. T cells (CD4+ CD3+ B220−) were isolated from bronchoalveolar lavage by FACS, and processed for single-cell RNA sequencing with paired TCR (VDJ) profiling using 10x Genomics Chromium.

2026-07-31 | E-MTAB-17402 | biostudies-arrayexpress

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