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Single cell RNA sequencing of DDX4 antibody positive and negative ovarian tissue cells cultured under oogonial stem cell conditions

ABSTRACT: Single cell RNA sequencing of DDX4 antibody positive and negative ovarian tissue cells cultured under oogonial stem cell conditions

PROVIDER: PRJEB34730 | ENA |

REPOSITORIES: ENA

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Single cell RNA sequencing of DDX4 antibody positive and negative ovarian tissue cells cultured under oogonial stem cell conditions

Project description:Human ovarian tissue cells positive for DDX4 on the surface were claimed to be of oogonial stem cell nature. In order to study DDX4 antibody positive putative oogonial stem cells, ovarian tissue cells were sorted into DDX4 antibody positive and negative populations and single cell RNA-seq was performed using Smart-seq2.

2020-01-30 | E-MTAB-8403 | biostudies-arrayexpress

The clinical and genomic significance of donor-specific antibody (DSA) positive/C4d negative and DSA negative/C4d negative transplant glomerulopathy

Project description:We investigated the clinical, histopathologic and genomic features of donor-specific antibody (DSA) +/C4d- and DSA-/C4d- transplant glomerulopathy (TGP) using microarrays. Comparison of the gene expression profiles of DSA-/C4d- TGP biopsies with ptc+g score > 1 to normal and IFTA (Interstitial Fibrosis and Tubular Atrophy) biopsies by microarrays revealed increased expression of quantitative cytotoxic T cell--associated transcripts (QCAT). However, CAMR (chronic antibody-mediated rejection) and DSA+/C4d- TGP had increased expression of QCAT, interferon-gamma and rejection induced, constitutive macrophage-associated, natural killer cell-associated, and DSA selective transcripts. B cell and endothelial cell associated transcripts expression were upregulated only in CAMR biopsies. Our results suggest that while DSA+/C4d- TGP should be classified under CAMR, DSA-/C4d- TGP with ptc+g score > 1 probably develops through a chronic cellular immune response.

2013-02-07 | GSE44131 | GEO

The clinical and genomic significance of donor-specific antibody (DSA) positive/C4d negative and DSA negative/C4d negative transplant glomerulopathy

2013-02-07 | E-GEOD-44131 | biostudies-arrayexpress

Expression data from cultured human ovarian carcinoma cell lines

Project description:The hallmark of human cancer is heterogeneity, mirroring the complexity of genetic and epigenetic alterations acquired during oncogenesis. We extracted RNA of 34 cultured human ovarian carcinoma cell lines and performed expression microarrays so that cultured cell lines can represent in vivo human tumors.

2013-05-21 | GSE28724 | GEO

Ovarian cancer cell line RMG1: ALDEFLUOR positive vs. negative

Project description:Transcriptional profiling of ALDH1 high cancer stem like cells of ovarian cancer cell line, sorted out using ALDEFLUOR assay. Two-condition experiment, ALDEFLUOR positive vs. negative cells. Biological replicates: 1 ALDEFLUOR positive replicate, 1 negative replicate.

2015-04-30 | E-GEOD-64539 | biostudies-arrayexpress

Expression data from cultured human ovarian carcinoma cell lines

2013-05-21 | E-GEOD-28724 | biostudies-arrayexpress

Ovarian cancer cell line RMG1: ALDEFLUOR positive vs. negative

Project description:Transcriptional profiling of ALDH1 high cancer stem like cells of ovarian cancer cell line, sorted out using ALDEFLUOR assay.

2015-04-30 | GSE64539 | GEO

Foxp3 positive and negative cell comparison

Project description:Regulatory T cells have been shown to adopt a catabolic metabolic programme with increased capacity for fatty acid oxidation fuelled oxidative phosphorylation (OXPHOS). The role of Foxp3 in this metabolic shift is poorly understood. Here we show that Foxp3 was sufficient to induce a significant increase in the spare respiratory capacity of the cell, the extra OXPHOS capacity available to a cell to increased demands on energy in response to work. Foxp3-expressing cells were enhanced in their ability to utilise palmitate for respiration and in addition the activity of electron transport complexes I, II and IV were enhanced following Foxp3 expression. ATP was secreted by both T effector and regulatory T cells and was reduced by mitochondrial respiration inhibitors. Thus Foxp3 imparts a selective advantage in ATP generation capacity to the cell and may exploit this as a source of adenosine for functional immunomodulation. In order to explore possible mechanisms for these differences in metabolism we conducted a comparative quantitative proteomics study to compare the contribution of TGFβ and the transcription factor Foxp3 to the Treg proteome. We used quantitative mass spectrometry to examine differences between proteomes of nuclear and cytoplasmic Foxp3-containing T cells and Foxp3 positive iTreg and Foxp3 negative activated CD4 T cells in addition to human peripheral blood natural Treg. Gene set enrichment analysis of our proteomic datasets demonstrated that Foxp3 drives a significant up regulation of several members of the mitochondrial electron transport chain.

2017-02-15 | PXD001789 | Pride

Transcriptomes of high-grade serous ovarian cancer cell lines cultured in monolayer and in spheroids.

Project description:HGSOC cancer cell lines OvCAR3 and G164 were cultured in monolayer and spheroids and subjected to RNA-sequencing.

2024-05-02 | GSE235099 | GEO

Gene expression in cultured bovine ovarian granulosa

Project description:The growth of the mammalian ovarian follicle requires the formation of a fluid filled antrum, and maturation and differentiation of the ovarian granulosa cells, largely under the control of Follicle Stimulating Hormone (FSH). Many follicles will regress and die by a process called atresia at this early antral stage. We therefore decided to analyse the gene expression profiles of granulosa cells cultured in the presence or absence of FSH and Tumour Necrosis Factor-alpha (TNFα), an apoptotic factor, to simulate the key influences. Different concentratons of FSH and TNFa in granulosa culture were used to determine effective conditions via estradiol and progesterone production, and cell number. RNA for the array experiments and quantitative real time PCR was extracted from cells cultured with FSH added at 0.33 and TNFα at 50 ng/ml.

2014-05-20 | GSE42535 | GEO

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