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accession-icon GSE24574
Expression data from BCL6-YFP-positive Tfh cells, BCL6-YFP-negative Tfh cells, non-Tfh cells, and nave helper T cells.
  • organism-icon Mus musculus
  • sample-icon 1 Downloadable Sample
  • Technology Badge Icon

Description

We found that a number of Tfh cells downmodulated BCL6 protein after their development, and we sought to compare the gene expression between BCL6-hi Tfh cells and BCL6-low Tfh cells.

Publication Title

Bcl6 protein expression shapes pre-germinal center B cell dynamics and follicular helper T cell heterogeneity.

Sample Metadata Fields

Specimen part

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accession-icon GSE18926
Expression data from the liver of wild-type and Cnot3+/- mice
  • 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

Obesity resistance and increased hepatic expression of catabolism-related mRNAs in Cnot3+/- mice.

Sample Metadata Fields

Sex, Specimen part

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accession-icon GSE18925
Expression data from the liver of wild-type and Cnot3+/- mice: Fed vs Fasted
  • organism-icon Mus musculus
  • sample-icon 6 Downloadable Samples
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Description

Decay of mRNAs initiates with shortening of the poly(A) tail. Although the CCR4-NOT complex participates in deadenylation, how it becomes activates remain obscure. We show that complete deficiency in CNOT3, subunit 3 of this complex, is lethal in mice, but that heterozygotes survive as lean mice with hepatic and adipose tissues containing reduced lipid levels. Cnot3+/- mice have enhanced metabolic rates and remain lean on high-fat diets. We further provide evidence suggesting that CNOT3, by changing its level in response to feeding conditions, affects the activity of the CCR4-NOT deadenylase against poly(A) tails of specific mRNAs coding for proteins involved in metabolism of carbohydrates and fats.

Publication Title

Obesity resistance and increased hepatic expression of catabolism-related mRNAs in Cnot3+/- mice.

Sample Metadata Fields

Sex, Specimen part

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accession-icon GSE18924
Expression data from the liver of wild-type and Cnot3+/- mice: Fasted
  • organism-icon Mus musculus
  • sample-icon 4 Downloadable Samples
  • Technology Badge Icon

Description

Decay of mRNAs initiates with shortening of the poly(A) tail. Although the CCR4-NOT complex participates in deadenylation, how it becomes activates remain obscure. We show that complete deficiency in CNOT3, subunit 3 of this complex, is lethal in mice, but that heterozygotes survive as lean mice with hepatic and adipose tissues containing reduced lipid levels. Cnot3+/- mice have enhanced metabolic rates and remain lean on high-fat diets.

Publication Title

Obesity resistance and increased hepatic expression of catabolism-related mRNAs in Cnot3+/- mice.

Sample Metadata Fields

Sex, Specimen part

View Samples
accession-icon GSE32574
Response of Atf3-/- and WT BMDMs to treatment with LPS for 4 h
  • organism-icon Mus musculus
  • sample-icon 7 Downloadable Samples
  • Technology Badge Icon

Description

Atherosclerosis is a chronic inflammatory disease characterized by the accumulation of lipid-loaded macrophages in the arterial wall. Intimal macrophages internalize modified lipoproteins such as oxidized LDL (oxLDL) through scavenger receptors, leading to storage of excess cholesteryl esters in lipid bodies and a "foam cell" phenotype. In addition, stimulation of macrophage Toll-like receptors (TLRs) has been shown to promote lipid body proliferation. We investigated the possibility that there are transcriptional regulators that are common to both pathways for stimulating foam cell formation (modified lipoproteins and TLR stimulation), and identified the transcription factor ATF3 as a candidate regulator.

Publication Title

ATF3 protects against atherosclerosis by suppressing 25-hydroxycholesterol-induced lipid body formation.

Sample Metadata Fields

Sex, Specimen part

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accession-icon GSE13061
Comparative transcriptomic analysis of BA- or BL-
  • organism-icon Mus musculus
  • sample-icon 20 Downloadable Samples
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Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Bifidobacteria can protect from enteropathogenic infection through production of acetate.

Sample Metadata Fields

No sample metadata fields

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accession-icon GSE18244
Lewis lung carcinoma cells and TDAG8 overexpression
  • organism-icon Mus musculus
  • sample-icon 2 Downloadable Samples
  • Technology Badge Icon

Description

We observed the effects of TDAG8-overexpression in Lewis lung carcinoma (LLC) cells on the gene expression pattern.

Publication Title

The G protein-coupled receptor T-cell death-associated gene 8 (TDAG8) facilitates tumor development by serving as an extracellular pH sensor.

Sample Metadata Fields

Specimen part

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accession-icon GSE30701
In vivo Gene Expression Profiling of Retina Post-Intravitreal Injections of Dexamethasone and Triamcinolone at Clinically Relevant Time Points for Patient Care
  • organism-icon Mus musculus
  • sample-icon 6 Downloadable Samples
  • Technology Badge Icon

Description

PURPOSE To identify retinal genes and their relevant expression pathways affected by intravitreal injections of dexamethasone and triamcinolone acetonide in mice at clinically relevant time points for patient care.

Publication Title

In vivo gene expression profiling of retina postintravitreal injections of dexamethasone and triamcinolone at clinically relevant time points for patient care.

Sample Metadata Fields

Sex, Specimen part

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accession-icon GSE91394
Expression data from brains of BCAS1 knockout or wildtype mice
  • organism-icon Mus musculus
  • sample-icon 4 Downloadable Samples
  • Technology Badge Icon

Description

We used microarrays to compare the expression profiles between brains of BCAS1 knockout and wild type mice

Publication Title

Mice lacking BCAS1, a novel myelin-associated protein, display hypomyelination, schizophrenia-like abnormal behaviors, and upregulation of inflammatory genes in the brain.

Sample Metadata Fields

Sex, Specimen part

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accession-icon GSE64004
Expression data from ileum of mice suffered from subchronic and mild social defeat stress
  • organism-icon Mus musculus
  • sample-icon 10 Downloadable Samples
  • Technology Badge Icon

Description

This study aimed to investigate the effects of depression on transcriptome in ileum using a subchronic and mild social defeat stress (sCSDS) model. In addition to exhibiting social deficit and hyperphagia-like behavior, the sCSDS mice keep much more water in their body than control mice. In order to investigate the effect of social defeat stress on not only central nervous system but also function of gastrointestinal tract, the gene expression in ileum of stressed mice was compared with control mice.

Publication Title

Omics Studies of the Murine Intestinal Ecosystem Exposed to Subchronic and Mild Social Defeat Stress.

Sample Metadata Fields

Specimen part, Treatment

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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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