317ad6a9-f244-4f91-b96c-da71e656c282 - samples
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ABSTRACT:
PROVIDER: EGAD00001007687 | EGA |
REPOSITORIES: EGA
Similar Datasets
Project description:We performed a prospective investigation in Sézary syndrome by the application of a standardized multiparameter flow cytometry, FACS-cell sorting, and RNA-sequencing for an in-depth immunophenotypic and transcriptional profiling of Sézary cells.
| EGAS00001005229 | EGA
Project description:Tumour tissue was immediately obtained post-surgery along with paired healthy tissue near (<2cm from tumour margin) and far (>10cm) from the tumour site. Each tissue was dissociated and stained with flow cytometry antibodies and sorted by FACS into Live/Dead-negative EpCAM-positive CD3-negative populations. An additional sample was passed through the FACS however no sorting was applied (control for the effect of sorting). Total RNA was purified and tissues compared for gene expression to identify potential hits that were assessed for protein expression and immunogenicity in later experiments.
2020-02-27 | E-MTAB-8803 | biostudies-arrayexpress
Project description:The characterization of specialized cell subpopulations in a heterogeneous tissue is essential for understanding organ function in health and disease. A popular method of cell isolation is fluorescence-activated cell sorting (FACS) based on probes that bind surface or intracellular markers. In this study, we analyse the impact of FACS on the cell metabolome of mouse peritoneal macrophages. Compared with directly pelleted macrophages, FACS-treated cells had an altered content of metabolites related to the plasma membrane, activating a mechanosensory signalling cascade causing inflammation-like stress. The procedure also triggered alterations related to energy consumption and cell damage. The observed changes mostly derive from the physical impact on cells during their passage through the instrument. These findings provide evidence of FACS-induced biochemical changes, which should be taken into account in the design of robust metabolic assays of cells separated by flow cytometry. </br></br> The GC-MS assay is reported in the current study MTBLS634. </br> The General LC-MS assay is reported in MTBLS629. </br> The Lipidomic LC-MS assay is reported in MTBLS631. </br></br> The CE-MS assay is reported in MTBLS633. </br></br> Linked Studies: <a href='https://www.ebi.ac.uk/metabolights/MTBLS629' target='_blank'><span class='label label-success'>MTBLS629</span></a> <a href='https://www.ebi.ac.uk/metabolights/MTBLS631' target='_blank'><span class='label label-success'>MTBLS631</span></a> <a href='https://www.ebi.ac.uk/metabolights/MTBLS633' target='_blank'><span class='label label-success'>MTBLS633</span></a>
2018-11-06 | MTBLS634 | MetaboLights
Project description:The characterization of specialized cell subpopulations in a heterogeneous tissue is essential for understanding organ function in health and disease. A popular method of cell isolation is fluorescence-activated cell sorting (FACS) based on probes that bind surface or intracellular markers. In this study, we analyse the impact of FACS on the cell metabolome of mouse peritoneal macrophages. Compared with directly pelleted macrophages, FACS-treated cells had an altered content of metabolites related to the plasma membrane, activating a mechanosensory signalling cascade causing inflammation-like stress. The procedure also triggered alterations related to energy consumption and cell damage. The observed changes mostly derive from the physical impact on cells during their passage through the instrument. These findings provide evidence of FACS-induced biochemical changes, which should be taken into account in the design of robust metabolic assays of cells separated by flow cytometry. </br></br> The CE-MS assay is reported in the current study MTBLS633. </br> The General LC-MS assay is reported in MTBLS629. </br> The Lipidomic LC-MS assay is reported in MTBLS631. </br> The GC-MS assay is reported in MTBLS634. </br></br> Linked Studies: <a href='https://www.ebi.ac.uk/metabolights/MTBLS629' target='_blank'><span class='label label-success'>MTBLS629</span></a> <a href='https://www.ebi.ac.uk/metabolights/MTBLS631' target='_blank'><span class='label label-success'>MTBLS631</span></a> <a href='https://www.ebi.ac.uk/metabolights/MTBLS634' target='_blank'><span class='label label-success'>MTBLS634</span></a>
2018-11-06 | MTBLS633 | MetaboLights
Project description:The characterization of specialized cell subpopulations in a heterogeneous tissue is essential for understanding organ function in health and disease. A popular method of cell isolation is fluorescence-activated cell sorting (FACS) based on probes that bind surface or intracellular markers. In this study, we analyse the impact of FACS on the cell metabolome of mouse peritoneal macrophages. Compared with directly pelleted macrophages, FACS-treated cells had an altered content of metabolites related to the plasma membrane, activating a mechanosensory signalling cascade causing inflammation-like stress. The procedure also triggered alterations related to energy consumption and cell damage. The observed changes mostly derive from the physical impact on cells during their passage through the instrument. These findings provide evidence of FACS-induced biochemical changes, which should be taken into account in the design of robust metabolic assays of cells separated by flow cytometry. </br></br> The Lipidomic LC-MS assay is reported in the current study MTBLS631. </br> The General LC-MS assay is reported in MTBLS629. </br> The CE-MS assay is reported in MTBLS633. </br> The GC-MS assay is reported in MTBLS634. </br></br> Linked Studies: <a href='https://www.ebi.ac.uk/metabolights/MTBLS629' target='_blank'><span class='label label-success'>MTBLS629</span></a> <a href='https://www.ebi.ac.uk/metabolights/MTBLS633' target='_blank'><span class='label label-success'>MTBLS633</span></a> <a href='https://www.ebi.ac.uk/metabolights/MTBLS634' target='_blank'><span class='label label-success'>MTBLS634</span></a>
2018-11-06 | MTBLS631 | MetaboLights
Project description:The characterization of specialized cell subpopulations in a heterogeneous tissue is essential for understanding organ function in health and disease. A popular method of cell isolation is fluorescence-activated cell sorting (FACS) based on probes that bind surface or intracellular markers. In this study, we analyse the impact of FACS on the cell metabolome of mouse peritoneal macrophages. Compared with directly pelleted macrophages, FACS-treated cells had an altered content of metabolites related to the plasma membrane, activating a mechanosensory signalling cascade causing inflammation-like stress. The procedure also triggered alterations related to energy consumption and cell damage. The observed changes mostly derive from the physical impact on cells during their passage through the instrument. These findings provide evidence of FACS-induced biochemical changes, which should be taken into account in the design of robust metabolic assays of cells separated by flow cytometry. </br></br> The General LC-MS assay is reported in the current study MTBLS629. </br> The Lipidomic LC-MS assay is reported in MTBLS631. </br> The CE-MS assay is reported in MTBLS633. </br> The GC-MS assay is reported in MTBLS634. </br></br> Linked Studies: <a href='https://www.ebi.ac.uk/metabolights/MTBLS631' target='_blank'><span class='label label-success'>MTBLS631</span></a> <a href='https://www.ebi.ac.uk/metabolights/MTBLS633' target='_blank'><span class='label label-success'>MTBLS633</span></a> <a href='https://www.ebi.ac.uk/metabolights/MTBLS634' target='_blank'><span class='label label-success'>MTBLS634</span></a>
2018-11-06 | MTBLS629 | MetaboLights
Project description:To better define primary CD96+ NK cells and CD96- NK cells from human liver, we isolated primary hepatic lymphocytes from healthy liver and purified CD96+ and CD96- NK cells through negative selection and flow cytometry sorting. Purified NK cells from human liver tissues were first enriched by MACS using NK Cell Isolation Kit (Miltenyi Biotec, German) and CD96+/- hepatic NK cells were isolated by FACS Aria cell sorter (BD Biosciences, United States) to attain a purity greater than 95%.
2020-12-31 | GSE98614 | GEO
Project description:Transcriptome analysis was conducted to investigate the gene expression profiles of pDCs using bulk RNA-sequencing (RNA-seq). Peripheral blood mononuclear cells (PBMCs) from healthy donors (n=3) were stained with lineage markers (CD3, CD14, CD16, CD19, and CD56), and pDCs were identified via flow cytometry (fluorescence-activated cell sorting [FACS]) based on the co-expression of IL-3R (CD123) and BDCA-2 (CD303). mDCs were identified using CD11c and sorted from the same PBMC donor as a control. After sorting, mRNA was extracted from the sorted cells, including mDCs and pDCs. The whole transcriptome profile was analyzed via RNA-seq.
2023-10-24 | E-MTAB-13390 | biostudies-arrayexpress
Project description:Lysophosphatidic acid receptor 1 (LPA1) is a phospholipid which has been linked to adult hippocampal neurogenesis and learning deficits. Here we investigated whether LPA acts directly on the hippocampal stem cells and whether LPA1 could be a functional marker for their prospective isolation. Our results reveal that exogenous LPA increases precursor potential in vitro and net neurogenesis in vivo, an effect that is mediated by Akt activation. Using a mouse reporter line, immunohistochemistry and flow cytometry followed by in vitro cell culture, we show that, in contrast to the subventricular zone, neural precursor cells in the adult mouse dentate gyrus express LPA1-GFP. Fluorescence-activated cell sorting for LPA1-GFP in combination with Prominin-1 and epidermal growth factor receptor expression allowed the efficient isolation of a very pure population of hippocampal stem cells. Transcriptional analysis revealed a profile suggesting immune response and cytokine signaling as molecular regulators of adult hippocampal neural stem cells. RNA from cells sorted (FACS) from the dentate gyrus of adult LPA1-GFP (lysophosphatidic acid receptor) reporter mice. Sorting was based on the markers EGFR (Egfr), LPA1 (Lpar1) and Prominin1 (Prom1). From each of 4 replicates, 3 populations (stem cells, progenitor cells, niche cells) were sequenced.
2016-07-03 | E-GEOD-68270 | biostudies-arrayexpress
Project description:The CD19 positive antibody secreting cells (ASC) in both bone marrow (BM) have the capacity to provide immune memory in addition to cells traditionally considered long-lived, the CD19-negative BM ASC. We performed flow cytometry (FCM) immunophenotyping, fluorescence-activated cell sorting (FACS) for cell subset isolation, ELISpot assays detecting the isotype of antibody secretion as well as antibodies against vaccine derived antigens, and comparative gene expression analyses of CD19- ASC, CD19+ ASC, CD20- B cells, and CD20+ B cells from BM. The findings may aid in the understanding of the differential cell subsets created through vaccination and lead to improved vaccine strategies and production. FACS sorted tissue B cells and antibody secreting cell subset gene expression.
2018-12-03 | GSE107683 | GEO