Project description:The single-cell RNA-seq experiment aims to explore the cell-type composition of right coronary artery plaques to provide an overview of human-like atherosclerosis. The PCSK9 transgenic minipigs were subjected to 15 months of HFHC diet (HFHC group f, n=4; m, n=1). At the time of euthanasia, plaque parts without media were quickly processed and analyzed by scRNA-sequencing.

2025-08-30 | E-MTAB-15464 | biostudies-arrayexpress

Systematic Single-Cell Dissection of Cell Cycle and TGFβ-Induced State Transitions Underlying Gemcitabine Resistance in 3D Pancreatic Tumor Tissue

Project description:Study Description for ArrayExpress Submission: This study investigates cellular heterogeneity and mechanisms of gemcitabine resistance in pancreatic cancer using single-cell RNA sequencing of PANC-1 cells cultured in a 3D environment (and 2D control). Cells were seeded onto a decellularized porcine intestinal matrix to mimic the tumor microenvironment. The experiment analyzed transcriptional profiles before gemcitabine treatment, with particular attention to invasion and resistance states induced by TGFβ. Single-cell RNA-seq was used to map the transcriptional landscape of 3D pancreatic tumor tissues, capturing cell state transitions, differentiation trajectories, and resistance-associated profiles. The analysis identified cell cycle–dependent resistance signatures (late S to G2(/M) phase), tissue differentiation-associated states, and TGFβ-induced epithelial-to-mesenchymal transition (EMT) pathways contributing to chemoresistance. The dataset includes untreated samples with and without TGFβ stimulation, enabling identification of attractor states and transitional paths leading to gemcitabine resistance. This study provides insight into tumor cell plasticity and dedifferentiation in a 3D matrix environment, supporting early diagnostic and therapeutic research in pancreatic cancer.

2026-07-10 | E-MTAB-17360 | 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

scRNA-seq for the monkey primary visual cortex

Project description:Transcriptomes of monkey primary visual cortex at the single-cell resolution. The dataset includes all cell types, including both glia and neurons.

2022-10-24 | E-MTAB-10459 | biostudies-arrayexpress

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