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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Comparison of miRNA expression profiling in CD14+ monocytes between anti-MDA5-positive three patients and three healthy controls

ABSTRACT: miRNA array was conducted to identify relevant pathological pathways in activated monocytes in anti-MDA5-positive patients in comparison of those in healthy controls.

ORGANISM(S): Homo sapiens

SUBMITTER: Takahisa Gono

PROVIDER: E-MTAB-10471 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Antiviral proinflammatory phenotype of monocytes in anti-MDA5 antibody-associated interstitial lung disease.

Gono Takahisa T Okazaki Yuka Y Kuwana Masataka M

Rheumatology (Oxford, England) 20220201 2

<h4>Objective</h4>To evaluate upstream and downstream regulators leading to macrophage activation and subsequent cytokine storm in patients with anti-melanoma differentiation-associated gene 5 (MDA5) antibody-associated interstitial lung disease (ILD).<h4>Methods</h4>We conducted an integrated miRNA-mRNA association analysis using circulating monocytes from 3 patients with anti-MDA5-associated ILD and 3 healthy controls and identified disease pathways and a regulator effect network by Ingenuity ...[more]

PMID: 33890985

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Comparison of gene microarray analysis in CD14+ monocytes between anti-MDA5-positive three patients and three healthy controls

Project description:mRNA array was conducted to identify relevant pathological pathways in activated monocytes in anti-MDA5-positive patients in comparison of those in healthy controls.

2021-05-04 | E-MTAB-10472 | biostudies-arrayexpress

Circulating microRNA profiles in patients with type-1 autoimmune hepatitis

Project description:Recent studies have demonstrated that micro (mi)RNA molecules can be detected in the circulation and can serve as potential biomarkers of various diseases. This study used microarray analysis to identify aberrantly expressed circulating miRNAs in patients with type 1 autoimmune hepatitis (AIH) compared with healthy controls. Patients with well-documented and untreated AIH were selected from the National Hospital Organization (NHO)-AIH-liver-network database. They underwent blood sampling and liver biopsy with inflammation grading and fibrosis staging before receiving treatment. To further confirm the microarray data, circulating expression levels of miR-21 and miR-122 were quantified by real-time quantitative polymerase chain reaction in 46 AIH patients, 40 patients with chronic hepatitis C (CHC), and 15 healthy controls. Consistent with the microarray data, serum levels of miR-21 were significantly elevated in AIH patients compared with CHC patients and healthy controls. miR-21 and miR-122 serum levels correlated with alanine aminotransferase levels. Circulating levels of miR-21 and miR-122 were significantly reduced in AIH patients with liver cirrhosis, and were inversely correlated with increased stages of fibrosis. By contrast, levels of circulating miR-21 showed a significant correlation with the histological grades of inflammation in AIH. We postulate that aberrantly expressed serum miRNAs are potential biomarkers of AIH and could be implicated in AIH pathogenesis. Alternations of miR-21 and miR-122 serum levels could reflect their putative roles in the mediation of inflammatory processes in AIH. Case-control study, steroid treatment

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Differentially expressed miRNAs in xenografts and organoids derived from human cholangiocarcinoma [miRNA]

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2016-04-01 | E-GEOD-67209 | biostudies-arrayexpress

Identification of recurrence related microRNAs from bone marrow in hepatocellular carcinoma (HCC) patients

Project description:To identify the role of miRNAs in patient bone marrow (BM) and explore the function of these molecules during HCC progression, we employed microarray-based profiling to analyze miRNA expression in the BM of patients with HCC. MicroRNA expression in the BW of HCC patients was measured by using microarray-based profiling. BM cells were separated into 3fraction by cell surface markers as follows: CD45+(macrophage), CD14-/CD45+(lymphocyte) and CD14-/CD45-/EpCAM+(epithelial cell).

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Project description:The miRNAs expression was markedly altered with the treatment of gemcitabine on human CCC cells in vitro. And various miRNAs induced by gemcitabine may contribute to tumor regression in vitro. Using a custom microarray platform, we analyzed the expression levels of 2555 human miRNA probes in the cell lines in vitro that were treated with and without gemcitabine.

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Differentially expressed genes in xenografts and organoids derived from human cholangiocarcinoma

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

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Gene expression analysis compared myxoid liposarcoma tissue with normal fat tissue

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Knockdown of human TCF4 affects multiple signaling pathways involved in cell survival, epithelial-to-mesenchymal transition and neuronal differentiation

Project description:TCF4 is an important neurodevelopmental transcription factor associated with schizophrenia and Pitt-Hopkins syndrome. In this study, we used genome-wide expression profiling to determine the effects of acute TCF4 knockdown on gene expression in SH-SY5Y neuroblastoma cells. Pathway and enrichment analysis on the differentially expressed genes in TCF4-knockdown cells identified an over-representation of genes involved in TGF-β signaling, epithelial-to-mesenchymal transition (EMT) and apoptosis. Among the most significantly differentially expressed genes were the EMT regulators SNAI2 and DEC1 and the proneural genes NEUROG2 and ASCL1. Altered expression of several mental retardation genes such as UBE3A (AS), ZEB2 (MWS) and MEF2C was also found in TCF4-depleted cells. These data suggest that TCF4 regulates a number of convergent signaling pathways involved in cell differentiation and survival in addition to a subset of clinically important mental retardation genes. To identify TCF4-mediated gene expression changes in SH-SY5Y cells, experiments were conducted with two control (mock and GAPDH KD) and two TCF4 knockdown (KD1 and KD2) groups. Two non-overlapping siRNAs against TCF4 were designed and transfected over a 72h period to induce global knockdown of TCF4 transcripts. In parallel, cells were mock transfected (mock; transfection reagent only) and transfected with an unrelated siRNA against GAPDH (GAPDH KD) in order to control for background gene expression changes due to transfection, presence of dsRNA and activation of the cellular silencing machinery. After transfection, RNA was extracted from all cells, converted to cDNA and labelled for microarray hybridization. Each of the four treatment groups (mock, GAPDH KD, KD1 and KD2) contained three biological replicates which were processed at the same time using the Toray microarray platform.

2013-08-20 | E-GEOD-48367 | biostudies-arrayexpress

Gene expression analysis of synovial sarcoma, clinical samples

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2015-07-23 | E-GEOD-65532 | biostudies-arrayexpress

The change of mRNA expression in murine immortalized podocyte after miR-26a silencing

Project description:The change of mRNA expression in murine immortalized podocyte were analyzed after miR-26a silencing. These results provide a basical information of molecular pathology in podocyte biology. Mouse podocytes immortalized by temperature sensitive SV40 were used. Podocyte cultures grown at 33 °C were trypsinized and then cultured with RPMI-1640 without antibiotics in 24-well plates at 60–70% confluence for 2 days. On day 3, an anti-miR negative control (40 pmol) or the miR-26a miRNA inhibitor (40 pmol) was transfected to podocytes. The cells were analyzed after culturing for 24 hour.

2014-10-01 | E-GEOD-51210 | biostudies-arrayexpress

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