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accession-icon GSE17880
Expression data from B6C3F1 mice treated with 2-butoxyethanol and reduced oxygen
  • organism-icon Mus musculus
  • sample-icon 43 Downloadable Samples
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Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

The role of hypoxia in 2-butoxyethanol-induced hemangiosarcoma.

Sample Metadata Fields

Specimen part, Treatment, Time

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accession-icon GSE17266
Expression data from B6C3F1 mice treated with baclofen
  • organism-icon Mus musculus
  • sample-icon 56 Downloadable Samples
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Description

Mice were treated with either 100mg/kg baclofen or 0.5% methylcellulose alone by oral gavage for 1 or 5 days.

Publication Title

The role of hypoxia in 2-butoxyethanol-induced hemangiosarcoma.

Sample Metadata Fields

Specimen part, Treatment, Time

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accession-icon GSE17794
Expression data from B6C3F1 mice treated with 2-butoxyethanol
  • organism-icon Mus musculus
  • sample-icon 43 Downloadable Samples
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Description

Mice were dosed with 2-BE (900mg/kg) or vehicle by oral gavage and sacrificied either after 4 hours of a single dose or after 7 days of daily dosing.

Publication Title

The role of hypoxia in 2-butoxyethanol-induced hemangiosarcoma.

Sample Metadata Fields

Specimen part, Treatment, Time

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accession-icon GSE27901
Transactivation-deficient p53 Mutants in Ras-induced Cellular Senescence
  • organism-icon Mus musculus
  • sample-icon 22 Downloadable Samples
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Description

As a critical cellular stress sensor, p53 mediates a variety of defensive processes including cell-cycle arrest, apoptosis, and senescence to prevent propagation of hyperproliferative cells or cells with a damaged genome, hence the formation of neoplasia. Transactivation of downstream genes plays an important while sometimes controversial role in regulating these cellular processes. To evaluate the dependence on transcriptional activation in p53s activities, we generated genetically-modified mouse lines carrying mutations in the transactivation domains (TADs) of p53. These transactivatio-deficient mutants serve as unique reagents to probe the dependence on robust transactivation in p53-mediated cellular functions, as well as the underneath mechanisms. To identify genes differentially regulated by these p53 mutants, we performed gene expression profiling analysis on mouse embryonic fibroblast cells (MEFs) from these mice in the context of oncogenic Ras-induced premature cellular senescence.

Publication Title

Distinct p53 transcriptional programs dictate acute DNA-damage responses and tumor suppression.

Sample Metadata Fields

Specimen part

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accession-icon GSE20645
The difference of gene expression in mouse OPCs in normothermic and hypothermic culture
  • organism-icon Mus musculus
  • sample-icon 8 Downloadable Samples
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Description

We have found that the cell yield of oligodendrocyte precursor cells (OPCs) are higher in 31.5 than in 37 not by suppression of apoptosis but by enhancement of proliferation.

Publication Title

Hypothermia-induced increase of oligodendrocyte precursor cells: Possible involvement of plasmalemmal voltage-dependent anion channel 1.

Sample Metadata Fields

Specimen part

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accession-icon GSE9630
Expression data from mouse liver
  • organism-icon Mus musculus
  • sample-icon 58 Downloadable Samples
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Description

Exposure to high levels of arsenic in drinking water is associated with several types of cancers including lung, bladder and skin, as well as vascular disease and diabetes. Drinking water standards are based primarily on epidemiology and extrapolation from higher dose experiments, rather than measurements of phenotypic changes associated with chronic exposure to levels of arsenic similar to the current standard of 10ppb, and little is known about the difference between arsenic in food as opposed to arsenic in water. Measurement of phenotypic changes at low doses may be confounded by the effect of laboratory diet, in part because of trace amounts of arsenic in standard laboratory chows, but also because of broad metabolic changes in response to the chow itself. Finally, this series contrasts 8hr, 1mg/kg injected arsenic with the various chronic exposures, and also contrasts the acute effects of arsenic, dexamethasone or their combination. Male C57BL/6 mice were fed on two commercially available laboratory diets (LRD-5001 and AIN-76A) were chronically exposed, through drinking water or food, to environmentally relevant concentrations of sodium arsenite, or acutely exposed to dexamethasone.

Publication Title

Laboratory diet profoundly alters gene expression and confounds genomic analysis in mouse liver and lung.

Sample Metadata Fields

No sample metadata fields

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accession-icon GSE11056
Expression data from mouse lung
  • organism-icon Mus musculus
  • sample-icon 55 Downloadable Samples
  • Technology Badge Icon

Description

Exposure to high levels of arsenic in drinking water is associated with several types of cancers including lung, bladder and skin, as well as vascular disease and diabetes. Drinking water standards are based primarily on epidemiology and extrapolation from higher dose experiments, rather than measurements of phenotypic changes associated with chronic exposure to levels of arsenic similar to the current standard of 10ppb, and little is known about the difference between arsenic in food as opposed to arsenic in water. Measurement of phenotypic changes at low doses may be confounded by the effect of laboratory diet, in part because of trace amounts of arsenic in standard laboratory chows, but also because of broad metabolic changes in response to the chow itself. Finally, this series contrasts 8hr, 1mg/kg injected arsenic with the various chronic exposures, and also contrasts the acute effects of arsenic, dexamethasone or their combination. Male C57BL/6 mice were fed on two commercially available laboratory diets (LRD-5001 and AIN-76A) were chronically exposed, through drinking water or food, to environmentally relevant concentrations of sodium arsenite, or acutely exposed to dexamethasone.

Publication Title

Chronic exposure to arsenic in the drinking water alters the expression of immune response genes in mouse lung.

Sample Metadata Fields

No sample metadata fields

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accession-icon GSE26069
Inducible Astrocytomas in Genetically Engineered Mice
  • organism-icon Mus musculus
  • sample-icon 8 Downloadable Samples
  • Technology Badge Icon

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Evolutionary etiology of high-grade astrocytomas.

Sample Metadata Fields

Sex, Time

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accession-icon GSE26002
Inducible Astrocytomas in Genetically Engineered Mice: Affymetrix
  • organism-icon Mus musculus
  • sample-icon 8 Downloadable Samples
  • Technology Badge Icon

Description

To determine the regulatory pathways necessary for astrocytoma formation within complex adult brain microenvironments, we engineered mice for adult astrocyte-specific disruption of key regulators (pRb, Kras and Pten). Drivers of all astrocytoma grades were identified using CreERTM-inducible alleles. Inactivation of pRb was necessary to initiate grade II disease, and was the only lesion to do so. Additional activation of Kras progressed disease to grade III, while further Pten inactivation facilitated grade IV (glioblastoma) progression. These outcomes were elicited whether somatic events were induced broadly or focally. In vivo inactivation of pRb, which induced astrocyte proliferation and apoptosis, activated the MAPK pathway, while Kras activation and Pten loss triggered PI3K pathways.

Publication Title

Evolutionary etiology of high-grade astrocytomas.

Sample Metadata Fields

Sex, Time

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refine.bio is a repository of uniformly processed and normalized, ready-to-use transcriptome data from publicly available sources. refine.bio is a project of the Childhood Cancer Data Lab (CCDL)

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Cite refine.bio

Casey S. Greene, Dongbo Hu, Richard W. W. Jones, Stephanie Liu, David S. Mejia, Rob Patro, Stephen R. Piccolo, Ariel Rodriguez Romero, Hirak Sarkar, Candace L. Savonen, Jaclyn N. Taroni, William E. Vauclain, Deepashree Venkatesh Prasad, Kurt G. Wheeler. refine.bio: a resource of uniformly processed publicly available gene expression datasets.
URL: https://www.refine.bio

Note that the contributor list is in alphabetical order as we prepare a manuscript for submission.

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