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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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P53-dependent transcription program in HepG2 cells

ABSTRACT: In order to obtain a global picture regarding regulation of p53 in liver cells we used HepG2 hepatoma cells.We created two isogenic sub-cultures of HepG2 cells with altered expression of p53. HepG2 cells were infected with a retroviral vector harboring either small-hairpin RNA targeting p53 (termed HepG2sh-p53) or a non relevant small-hairpin RNA (termed HepG2sh-con). Cells were treated with two different p53 stimulators - Nutlin and AICAR

ORGANISM(S): Homo sapiens

SUBMITTER: Ido Goldstein

PROVIDER: E-GEOD-30137 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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p53-dependent transcription program in HepG2 cells

Project description:In order to obtain a global picture regarding regulation of p53 in liver cells we used HepG2 hepatoma cells.We created two isogenic sub-cultures of HepG2 cells with altered expression of p53. HepG2 cells were infected with a retroviral vector harboring either small-hairpin RNA targeting p53 (termed HepG2sh-p53) or a non relevant small-hairpin RNA (termed HepG2sh-con).

2012-03-31 | GSE30137 | GEO

RNA-seq of U937 cells treated with AICAr

Project description:U937 cells were treated wth 0.2 mM AICAr for 24 h to compare the results on cell line know to differentiate in the presence of AICAr with the results on primary patient sample.

2020-11-15 | E-MTAB-9537 | biostudies-arrayexpress

Effect of acadesine and overexpression of the karyopherin Kap123 on nuclear abundance of yeast proteins

Project description:Based on genetic and affinity chromatography experiments, the karyopherin Kap123 was identified as an important player in the cellular response to the drug acadesine (AICAR, 5′-phosphoribosyl-5-amino-4-imidazole carboxamide). Since Kap123 mediates nuclear import of multiple proteins we hypothesized that AICAR could affect nuclear trafficking. The effect of acadesine (AICAR) on nuclear trafficking was assayed by comparing protein composition of enriched nuclear extracts from yeast treated or not with AICAR by label-free quantitative analysis. Total protein extracts from the same cultures were also assayed by quantitative mass spectrometry. A parallel analysis was performed on yeast cells grown in the presence of AICAR and overexpressing or not Kap123 to identify those proteins that are enriched in the nuclear fraction when Kap123 was overexpressed.

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Effect of 5-amino-4-imidazolecarboxamide ribotide (AICAr) supplementation on global transcription

Project description:We investigated the effects of AICAr supplementation on the global transcriptome of Y2950. The Y2950 strain was grown with or without AICAr. For each comparison, we made 2 biological replicates, swapping dyes.

2011-08-31 | E-GEOD-29019 | biostudies-arrayexpress

Role of Ado1p in the transcriptional response associated with AICAr supplementation

Project description:We investigated the role of Ado1p associated with AICAr supplementation on the global transcriptome of Y3188. The Y3188 strain was grown with or without AICAr. For each comparison, we made 2 biological replicates, swapping dyes.

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Transcriptome of primary acute myeloid leukemia (AML) cells treated with AICAr

Project description:Ribonucleoside AICAr, a precursor in purine synthesis and a known activator of AMPK, was shown to induce monocytic differentiation in AML cell lines by inducing pyrimidine depletion followed by activation of ATR/Chk1 pathway and cell cycle arrest. Here we report transcriptional changes induced by AICAr in the primary AML sample (FAB-M2, FLT3 negative, NPM1 negative) in which AICAr induced differentiation and accumulation of macrophage cells in vitro. RNA-seq transcriptome analysis of primary AML cells isolated from the bone marrow of a patient with de novo FAB-M2 AML. Mononuclear cells were isolated from the bone marrow sample by density gradient separation and grown in RPMI supplemented with 10% FBS, 2 mM L-glutamine, 50 U/ml penicillin, 50 μg/ml streptomycin and 50 ng/ml IL-3, IL-6, SCF and FLT3L. Cells were treated with AICAr (0.4 mM) for 24 h. Experiment was performed in biological triplicates and total RNA was isolated for transcriptome analysis using Illumina high throughput sequencing.

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AICAR can modulate the expression of microRNA in J1 mESC

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2014-02-06 | E-GEOD-54586 | biostudies-arrayexpress

Identification of the Saccharomyces cerevisiae ZMP binders

Project description:5′-phosphoribosyl-5-amino-4-imidazole carboxamide monophosphate (ZMP) is a metabolic intermediate of the de novo purine biosynthesis pathway. Its accumulation in several cell types from bacteria to human is associated with growth impairment. Identification of ZMP-binding proteins was performed to understand the molecular basis of ZMP toxicity. To assess the specificity of ZMP-binding proteins, an affinity chromatography approach was also applied to the closely related molecules AMP, SZMP (Succinyl-ZMP) and AICAR (5-amino-4-imidazole carboxamide ribonucleoside, also named Acadesine).

2018-11-21 | PXD007780 | Pride

Identification of phosphorylation sites of HA-ORP8 immunoprecipitated from cells

Project description:To candidate phosphorylation sites of ORP8 in cells and the stoichiometric change of ORP8's phosphorylation when AMPK is activated,LC-MS/MS analysis of ORP8 immunoprecipitated from serum-starved cells and cells treated with AMPK activator AICAR was performed.

2023-10-24 | PXD036204 | Pride

Transcription profiling ofmouse skeletal muscle - pharmacological regulation

Project description:Exercise activates serine/threonine kinase AMPK and transcriptional factor PPARdelta that re-model metabolism and endurance capacity of skeletal muscle. Whether and how synthetic activation of these molecules regulated muscle gene signature is unknown. We have conducted skeletal muscle microarrays from mice treated with AMPK agoinst (AICAR), PPARdelta agonist (GW1516) or the combination of the two drugs to investigate the individual and interactive effects of the two on muscle genes. Experiment Overall Design: C57Bl/6J mice were treated with Vehicle, AICAR, GW1516 and the combination of two drugs for 6 days, followed by collection of quadriceps for gene expression analysis.

2008-10-21 | E-GEOD-11804 | biostudies-arrayexpress

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