submitter_institution:Novartis Results

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Microarray (249)

Platform

Affymetrix Mouse Genome 430 2.0 Array (mouse4302) (249)

Affymetrix Rat Expression 230A Array (rae230a) (56)

Includes Publication

GSE68387

IMI MARCAR Project: towards novel biomarkers for cancer risk assessment

Mus musculus, Rattus norvegicus, Homo sapiens
56 Downloadable Samples

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Phenobarbital mediates an epigenetic switch at the constitutive androstane receptor (CAR) target gene Cyp2b10 in the liver of B6C3F1 mice.

Sample Metadata Fields

Sex, Age, Specimen part, Treatment, Subject, Time

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GSE34463

Phenobarbital mediates an epigenetic switch at the constitutive androstane receptor (CAR) target gene Cyp2b10 in the liver of B6C3F1 mice.

Mus musculus
40 Downloadable Samples

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Phenobarbital mediates an epigenetic switch at the constitutive androstane receptor (CAR) target gene Cyp2b10 in the liver of B6C3F1 mice.

Sample Metadata Fields

Sex, Specimen part, Treatment, Subject

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GSE51358

Metabolic programs orchestrated by the activated Ha-ras and -catenin oncoproteins in mouse liver tumors

Mus musculus
16 Downloadable Samples

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

No associated publication

Sample Metadata Fields

Sex, Specimen part

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GSE34423

Phenobarbital mediates an epigenetic switch at the constitutive androstane receptor (CAR) target gene Cyp2b10 in the liver of B6C3F1 mice [Expression array].

Mus musculus
40 Downloadable Samples

Description

Evidence suggests that epigenetic perturbations are involved in the adverse effects associated with some drugs and toxicants, including certain classes of non-genotoxic carcinogens. Such epigenetic changes (altered DNA methylation and covalent histone modifications) may take place at the earliest stages of carcinogenesis and their identification holds great promise for biomedical research. Here, we evaluate the sensitivity and specificity of genome-wide epigenomic and transcriptomic profiling in phenobarbital (PB)-treated B6C3F1 mice, a well-characterized rodent model of non-genotoxic liver carcinogenesis. Methylated DNA Immunoprecipitation (MeDIP)-coupled microarray profiling of 17,967 promoter regions and 4,566 intergenic CpG islands was combined with genome-wide mRNA expression profiling to identify liver tissue-specific PB-mediated DNA methylation and transcriptional alterations. Only a limited number of significant anti-correlations were observed between PB-induced transcriptional and promoter-based DNA methylation perturbations. However, the constitutive androstane receptor (CAR) target gene Cyp2b10 was found to be concomitantly hypomethylated and transcriptionally activated in a liver tissue-specific manner following PB treatment. Furthermore, analysis of active and repressive histone modifications using chromatin immunoprecipitation revealed a strong PB-mediated epigenetic switch at the Cyp2b10 promoter. Our data reveal that PB-induced transcriptional perturbations are not generally associated with broad changes in the DNA methylation status at proximal promoters and suggest that the drug-inducible CAR pathway regulates an epigenetic switch from repressive to active chromatin at the target gene Cyp2b10. This study demonstrates the utility of integrated epigenomic and transcriptomic profiling for elucidating early mechanisms and biomarkers of non-genotoxic carcinogenesis.

Publication Title

Phenobarbital mediates an epigenetic switch at the constitutive androstane receptor (CAR) target gene Cyp2b10 in the liver of B6C3F1 mice.

Sample Metadata Fields

Sex, Specimen part, Treatment, Subject

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GSE11415

C2C12 differentiation time course to observe changes between myoblasts and myotubes

Mus musculus
24 Downloadable Samples

Description

This analysis compares various timepoints from Day -1, 50% confluency myoblasts to Day 5 post differentiation myotubes.

Publication Title

No associated publication

Sample Metadata Fields

No sample metadata fields

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GSE51355

Metabolic programs orchestrated by the activated Ha-ras and -catenin oncoproteins in mouse liver tumors [mRNA]

Mus musculus
16 Downloadable Samples

Description

The process of hepatocarcinogenesis in the diethylnitrosamine (DEN) initiation/phenobarbital (PB) promotion mouse model involves the selective clonal outgrowth of cells harboring oncogene mutations in Ha-ras, B-raf, or Ctnnb1. Here, we have characterized mouse liver tumors harboring either Ctnnb1 or Ha-ras mutations via integrated molecular profiling at the transcriptional and translational and post-translational levels. In addition, metabolites of the intermediary metabolism were quantified by high resultion 1H magic angle nuclear magnetic resonance (HR-MAS NMR). We have identified tumor characteristic genotype-specific differences in mRNA and miRNA expression, protein levels, and post-translational modifications and in metabolite levels that facilitate the molecular and biochemical stratification of tumor phenotypes. Bioinformatic integration of these data at the pathway level led to novel insights into tumor genotype-specific aberrant cell signaling and in particular to a better understanding of alterations in pathways of the cell intermediary metabolism, which are driven by the constitutive activation of the -Catenin and Ha-ras oncoproteins in tumors of the two genotypes.

Publication Title

Ha-ras and β-catenin oncoproteins orchestrate metabolic programs in mouse liver tumors.

Sample Metadata Fields

Sex, Specimen part

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GSE45577

Profiling of glycerol- and CTX-induced models of muscle regeneration in mice

Mus musculus
48 Downloadable Samples

Description

Utilizing glycerol and cardiotoxin (CTX) injections in the tibialis anterior muscles of M. musculus provides models of skeletal muscle damages followed by skeletal muscle regeneration. In particular, glycerol-induced muscle regeneration is known to be associated with ectopic adipogenesis. We characterized genome-wide expression profiles of tibialis anterior muscles from wild-type mice injured by either glycerol or CTX injection. Our goal was to detect gene expression changes during the time course of glycerol-induced and CTX-induced muscle regeneration models, that can lead to ectopic adipocyte accumulation.