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ABSTRACT: ChIP-seq of Jazf1 in the rat pancreatic beta cell line INS-1E

PROVIDER: PRJNA595471 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10686671.fastq.gz	Fastqsanger.gz
	SRR10686672.fastq.gz	Fastqsanger.gz
	SRR10686673.fastq.gz	Fastqsanger.gz
	SRR10686674.fastq.gz	Fastqsanger.gz
	SRR10686675.fastq.gz	Fastqsanger.gz

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Integrative genomics outlines a biphasic glucose response and a ChREBP-RORÎ³ axis regulating proliferation in Î²-cells

Project description:Glucose is an important regulator of pancreatic Î²-cell function. In addition to the acute stimulation of insulin secretion, glucose stimulates long-term adaptive changes in gene expression that can either promote or antagonize the proliferative potential and function of Î²-cells. The glucose-sensing transcription factor carbohydrate response element binding protein (ChREBP) has been shown to promote both Î²-cell proliferation and dysfunction; however, the molecular mechanisms underlying these pleiotropic effects of ChREBP and glucose are not well understood. Here, we have generated time-resolved profiles of enhancer and transcriptional activity in response to glucose in the INS-1E pancreatic Î²-cell line. Our data outline a biphasic response with a first wave during which metabolic genes are activated, and a second wave where cell cycle genes are induced and Î²-cell identity genes are repressed. We show that ChREBP directly activates first wave genes, whereas repression and activation of second wave genes by ChREBP is indirect. By integrating motif enrichment within late-regulated enhancers with expression profiles of the associated transcription factors, we identify multiple putative regulators of the second wave, including RAR-related orphan receptor (ROR) Î³, which we demonstrate is a novel direct ChREBP target gene. Importantly, we show that RORÎ³ activity is necessary for full glucose-induced proliferation of both INS-1E and primary rat Î²-cells. Genome-wide assesment of the transcriptional response to glucose in INS-1E Î²-cells using RNA- ChIP- and DNase-seq

2016-09-06 | E-GEOD-81628 | biostudies-arrayexpress

Expression data from rat INS-1E cells

Project description:Cytokine-induced beta-cell apoptosis is a key event for the death of pancreatic beta cells in the development of type-1 diabetes. We identified BRD0476 as a novel suppressor of cytokine-induced beta-cell apoptosis. We used microarrays to look for gene set(s) that are regulated by BRD0476. Rat INS-1E cells were treated with cytokine cocktails (IL-1b, IFN-g and TNF-a) and/or BRD0476 for 6 or 12 hours. Total RNAs were isolated using the RNEasy kit from Qiagen.

2012-12-14 | E-GEOD-42897 | biostudies-arrayexpress

Integrative genomics outlines a biphasic glucose response and a ChREBP-RORγ axis regulating proliferation in β-cells

Project description:Glucose is an important regulator of pancreatic β-cell function. In addition to the acute stimulation of insulin secretion, glucose stimulates long-term adaptive changes in gene expression that can either promote or antagonize the proliferative potential and function of β-cells. The glucose-sensing transcription factor carbohydrate response element binding protein (ChREBP) has been shown to promote both β-cell proliferation and dysfunction; however, the molecular mechanisms underlying these pleiotropic effects of ChREBP and glucose are not well understood. Here, we have generated time-resolved profiles of enhancer and transcriptional activity in response to glucose in the INS-1E pancreatic β-cell line. Our data outline a biphasic response with a first wave during which metabolic genes are activated, and a second wave where cell cycle genes are induced and β-cell identity genes are repressed. We show that ChREBP directly activates first wave genes, whereas repression and activation of second wave genes by ChREBP is indirect. By integrating motif enrichment within late-regulated enhancers with expression profiles of the associated transcription factors, we identify multiple putative regulators of the second wave, including RAR-related orphan receptor (ROR) γ, which we demonstrate is a novel direct ChREBP target gene. Importantly, we show that RORγ activity is necessary for full glucose-induced proliferation of both INS-1E and primary rat β-cells.

2016-09-06 | GSE81628 | GEO

MiRNA profiling in Rattus norvegicus pancreatic cells: INS-1E cells during infection with Coxsackie B4 virus

Project description:This study aims at elucidating how Coxsackie B virus infection perturbs the host's miRNA regulatory pathways that may lead to different pathological events using the miRNA microarray approach. The rat pancreatic cell line - INS-1E, was infected with various preparations of Coxsackie B4 viruses was analysed for miRNA expression profiles subsequently. The miRNA expression profiles were measured at 48, and 72 hours post infection, respectively.

2015-01-01 | E-GEOD-58691 | biostudies-arrayexpress

Pdx1 overexpression sensitizes to IL-1b-induced apoptosis

2012-09-20 | GSE40642 | GEO

Pdx1 overexpression sensitizes to IL-1b-induced apoptosis

Project description:Cytokines have been shown to play a key role in the destruction of beta cells. In the rat insulinoma cell line (INS-1ab) overexpressing pancreatic duodenum homeobox 1 (Pdx1) increases sensitivity to Interleukin 1b (IL-1b). To elucidate mechanisms of action underlying Pdx1 driven potentiation of beta-cell sensitivity to IL-1β, we performed a microarray analysis of INS-1ab cells with and without Pdx1 overexpression exposed to IL-1β between 2h and 24h. INS-1ab cells were cultured with or without 500 ng/ml doxycycline (+/- DOX). After 24 h, 40 ng/ml IL-1b was either added or not (+/- IL-1b). Cells were harvested either 2h, 4h, 6h, 12h or 24h after addition of IL-1b. Four biological replicates for each of the eight groups.

2012-09-20 | E-GEOD-40642 | biostudies-arrayexpress

Detailed transcriptome atlas of the pancreatic beta cell

Project description:The aim of the present study was to explore the transcriptome of pancreatic islets and, based on this information, to prepare a comprehensive and open access inventory of insulin-producing ?-cell gene expression, the beta-Cell Gene Atlas (BCGA). INS-1 cells, primary rat beta-cells (>87% beta-cells) and non-beta-cells (<3% beta cells, mostly alpha) were isolated by FACS mediated purification of two different rat islet preparations.

2008-12-31 | E-GEOD-13381 | biostudies-arrayexpress

Insights from long non-coding RNAs profiling of beta cells undergoing high glucose/palmitate -induced glucolipotoxicity

Project description:RNA-Seq was performed to compare the control INS-1 cells (rat beta cell line)with the high glucose/palmitate-treated INS-1 cells. According to the expression profiling data, 264 significantly dysregulated lncRNAs were identified with a set filter (fold-change ≥2.0, p < 0.05) in the HG/PA-treated INS-1 cells: 153 were up-regulated, while 111 were down-regulated.

2019-12-01 | GSE124833 | GEO

Transcription profiling of rat insulinoma-beta (INS-1E) cells exposed to the cytokines IL-1-beta and IFN-gamma for six different lengths of time and with or without the inducible NO synthase blocker NMA

Project description:Locally released cytokines contribute to beta cell dysfunction and apoptosis in Type 1 diabetes. In vitro exposure of insulin producing INS-1E cells to the cytokines interleukin (IL)-1beta + interferon (IFN) gamma leads to a significant increase in apoptosis. To characterize the genetic networks implicated in beta cell dysfunction and apoptosis and its dependence on nitric oxide (NO) production, we performed a time course analysis using the Affymetrix RG U34A microarry. INS-1E cells were exposed in duplicate to IL-1beta + IFN-gamma for six different time points (1, 2, 4, 8, 12, and 24 h) with or without the inducible NO synthase blocker.

2006-06-14 | E-CBIL-10 | biostudies-arrayexpress

Insulin Receptor-Overexpressing beta-Cells Ameliorate Hyperglycemia in Diabetic Rats through Wnt Signaling Activation

Project description:To investigate the therapeutic efficacy of beta-cells with IR manipulation, a plasmid containing human IR was stably introduced into rat beta-cell line INS-1 cells (namely, INS-IR cells). In the INS-IR cells, the role of cross-talk between insulin and Wnt signaling pathways in improving the functionality of beta-cells was investigated.

2013-06-11 | E-MEXP-3836 | biostudies-arrayexpress

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