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accession-icon GSE40540
IP of 5-hydroxymethylcytosine (5-hmC) and 5-methylcytosine (5-mC) enriched DNA fragments from control and PB treated mouse livers
  • organism-icon Mus musculus
  • sample-icon 10 Downloadable Samples
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Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Dynamic changes in 5-hydroxymethylation signatures underpin early and late events in drug exposed liver.

Sample Metadata Fields

Sex, Specimen part, Treatment, Time

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accession-icon GSE28887
Gene expression profile of Age associated B cells, Follicular B cells, and B1 cells
  • organism-icon Mus musculus
  • sample-icon 12 Downloadable Samples
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Description

We performed gene expression profile of different B cell populations found in old (18 months old) C57BL/6 female mouse (B1 cells were recovered from both young and old C57BL/6 mice). Mice were nave and healthy (no autoimmunity was detected at the time of the experiment).

Publication Title

Toll-like receptor 7 (TLR7)-driven accumulation of a novel CD11c⁺ B-cell population is important for the development of autoimmunity.

Sample Metadata Fields

Sex, Age, Specimen part

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accession-icon GSE40773
Dynamic changes in liver 5-hydroxymethylcytosine profiles upon non-genotoxic carcinogen exposure
  • organism-icon Mus musculus
  • sample-icon 10 Downloadable Samples
  • Technology Badge Icon

Description

29-32 days old male mice where either treated with Phenobarbital or untreated

Publication Title

Dynamic changes in 5-hydroxymethylation signatures underpin early and late events in drug exposed liver.

Sample Metadata Fields

Sex, Specimen part, Treatment, Time

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accession-icon GSE27849
Dietary heme stimulates epithelial cell turnover by downregulating feedback inhibitors of proliferation in murine colon
  • organism-icon Mus musculus
  • sample-icon 18 Downloadable Samples
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Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Dietary haem stimulates epithelial cell turnover by downregulating feedback inhibitors of proliferation in murine colon.

Sample Metadata Fields

Sex, Age, Specimen part, Treatment

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accession-icon GSE17513
Expression data from murine embryonic stem cell derived cardiac progenitors
  • organism-icon Mus musculus
  • sample-icon 12 Downloadable Samples
  • Technology Badge Icon

Description

Mamamlian cardiogenesis occurs through the development of discreate populations of first and second heart field progenitors. We have used a dual transgenic color reproter system to isolate purified populations of these progenitors.

Publication Title

Generation of functional ventricular heart muscle from mouse ventricular progenitor cells.

Sample Metadata Fields

No sample metadata fields

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accession-icon GSE18586
Saturated fat stimulates obesity and hepatic steatosis and affects gut microbiota composition by an enhanced overflow of dietary fat to the distal intestine
  • organism-icon Mus musculus
  • sample-icon 9 Downloadable Samples
  • Technology Badge Icon

Description

We studied the effect of dietary fat type, varying in polyunsaturated/saturated fatty acid ratio's (P/S) on development of metabolic syndrome. C57Bl/6J mice were fed purified high-fat diets (45E% fat) containing palm oil (HF-PO; P/S 0.4), olive oil (HF-OO; P/S 1.1) or safflower oil (HF-SO; P/S 7.8) for 8 weeks. A low-fat palm oil diet (LF-PO; 10E% fat) was used as a reference. Additionally, we analyzed diet-induced changes in gut microbiota composition and mucosal gene expression. The HF-PO diet induced a higher body weight gain and liver triglyceride content compared to the HF-OO, HF-SO or LF-PO diet. In the intestine, the HF-PO diet reduced microbial diversity and increased the Firmicutes/Bacteroidetes ratio. Although this fits a typical obesity profile, our data clearly indicate that an overflow of the HF-PO diet to the distal intestine, rather than obesity itself, is the main trigger for these gut microbiota changes. A HF-PO diet-induced elevation of lipid metabolism-related genes in the distal small intestine confirmed the overflow of palm oil to the distal intestine. Some of these lipid metabolism-related genes were previously already associated with the metabolic syndrome. In conclusion, our data indicate that saturated fat (HF-PO) has a more stimulatory effect on weight gain and hepatic lipid accumulation than unsaturated fat (HF-OO and HF-SO). The overflow of fat to the distal intestine on the HF-PO diet induced changes in gut microbiota composition and mucosal gene expression. We speculate that both are directly or indirectly contributive to the saturated fat-induced development of obesity and hepatic steatosis.

Publication Title

Saturated fat stimulates obesity and hepatic steatosis and affects gut microbiota composition by an enhanced overflow of dietary fat to the distal intestine.

Sample Metadata Fields

Sex, Specimen part

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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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