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accession-icon GSE13610
Basal gene expression in bone (mice and rat)
  • organism-icon Mus musculus, Rattus norvegicus
  • sample-icon 6 Downloadable Samples
  • Technology Badge Icon

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Adult rat bones maintain distinct regionalized expression of markers associated with their development.

Alternate Accession IDs

E-GEOD-13610

Sample Metadata Fields

Sex, Specimen part, Treatment

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accession-icon GSE13563
Pilot study: Basal gene expression in bone
  • organism-icon Mus musculus
  • sample-icon 6 Downloadable Samples
  • Technology Badge Icon

Description

Pilot study

Publication Title

Adult rat bones maintain distinct regionalized expression of markers associated with their development.

Alternate Accession IDs

E-GEOD-13563

Sample Metadata Fields

Sex, Specimen part

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accession-icon GSE24928
Gene expression change induced by bisphenol A in mouse urogenital sinus
  • organism-icon Mus musculus
  • sample-icon 9 Downloadable Samples
  • Technology Badge Icon

Description

Bisphenol A (BPA), an endocrine-disrupting chemical (EDC), is a well-known, ubiquitous estrogenic chemical. To investigate the effects of fetal exposure to low-dose BPA on the development of the prostate, we first examined the alterations of in situ sex steroid hormonal environment in the mouse urogenital sinus (UGS).

Publication Title

Endocrine disrupter bisphenol A increases in situ estrogen production in the mouse urogenital sinus.

Alternate Accession IDs

E-GEOD-24928

Sample Metadata Fields

Specimen part

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accession-icon GSE31317
Expression data from SP and non-SP sorted anti-EpCAM treated A2C12 and A549 cells compared to non-transgenic lung tissue
  • organism-icon Mus musculus, Homo sapiens
  • sample-icon 34 Downloadable Samples
  • Technology Badge Icon

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

No associated publication

Alternate Accession IDs

E-GEOD-31317

Sample Metadata Fields

Sex, Specimen part, Cell line, Treatment

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accession-icon GSE31313
Expression data from anti-EpCAM treated and untreated SP cells compared to lung tissue
  • organism-icon Mus musculus
  • sample-icon 22 Downloadable Samples
  • Technology Badge Icon

Description

Targeted therapies against cancer stem cells which are enriched in side populations (SP) involves interruption of Wnt-signalling. Furthermore, EpCAM is a SP marker and modulator of Wnt-signalling. Therefore, the effects of an anti-EpCAM treatment on SP-cells and WNT/-catenin signalling was studied.

Publication Title

No associated publication

Alternate Accession IDs

E-GEOD-31313

Sample Metadata Fields

Sex, Cell line

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accession-icon GSE31246
Expression data from SP and non-SP sorted anti-EpCAM treated A2C12 cells
  • organism-icon Mus musculus
  • sample-icon 12 Downloadable Samples
  • Technology Badge Icon

Description

Targeted therapies against cancer stem cells which are enriched in side populations (SP) involves interruption of Wnt-signalling. Furthermore, EpCAM is a SP marker and modulator of Wnt-signalling. Therefore, the effects of an anti-EpCAM treatment on SP-cells and WNT/-catenin signalling was studied.

Publication Title

No associated publication

Alternate Accession IDs

E-GEOD-31246

Sample Metadata Fields

Cell line, Treatment

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accession-icon GSE16585
Expression profiling of P14 and P28 mouse retina from 4 genotypes: +/+, Rorb-/- , +/+;CrxpNrl and Rorb-/-;CrxpNrl
  • organism-icon Mus musculus
  • sample-icon 31 Downloadable Samples
  • Technology Badge Icon

Description

Rorb is essential for rod photoreceptor development in the mouse retina. Using Affymetrix mouse GeneChips, we have generated expression profiles of the +/+, Rorb-/- , +/+;CrxpNrl and Rorb-/-;CrxpNrl retina at P14 and P28.

Publication Title

Retinoid-related orphan nuclear receptor RORbeta is an early-acting factor in rod photoreceptor development.

Alternate Accession IDs

E-GEOD-16585

Sample Metadata Fields

Specimen part

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accession-icon GSE27429
Expression data at 24 hours after the blocking of Shh signaling in tooth germs at embryonic day 14
  • organism-icon Mus musculus
  • sample-icon 8 Downloadable Samples
  • Technology Badge Icon

Description

The genetic mechanism governing the spatial patterning of teeth still remains to be elucidated. Sonic hedgehog (Shh) is one of key signaling molecules involved in the spatial patterning of teeth. By utilizing maternal transfer of 5E1 (an IgG1 monoclonal antibody against Shh protein) through the placenta to block Shh signaling, we investigated the changes in tooth patterning and in gene expression.

Publication Title

Interactions between Shh, Sostdc1 and Wnt signaling and a new feedback loop for spatial patterning of the teeth.

Alternate Accession IDs

E-GEOD-27429

Sample Metadata Fields

Specimen part, Time

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accession-icon GSE28830
Differential gene expression in CD11b+ splenocytes from mice subject to social threat vs. control (II)
  • organism-icon Mus musculus
  • sample-icon 9 Downloadable Samples
  • Technology Badge Icon

Description

Gene expression profiling was carried out on splenocyte mRNA samples collected from 6 animals subject to repeated social threat and 6 animals subject to non-threatening control conditions (pooled into 3 groups of 2). The primary research question is whether gene expression differs in CD11b+ splenocytes from animals exposed to social threat vs non-threatening control conditions.

Publication Title

No associated publication

Alternate Accession IDs

E-GEOD-28830

Sample Metadata Fields

Specimen part

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accession-icon GSE26446
Expression data from Rbp2f/f and Rbp2-/- ES cells before and after differentiation
  • organism-icon Mus musculus
  • sample-icon 8 Downloadable Samples
  • Technology Badge Icon

Description

Aberrations in epigenetic processes, such as histone methylation, can lead to cancer. Retinoblastoma Binding Protein 2 (RBP2)(also called JARID1A or KDM5A) can demethylate tri- and di-methylated lysine 4 in histone H3, which are epigenetic marks for transcriptionally active chromatin, whereas the MEN1 tumor suppressor promotes H3K4 methylation. Previous studies suggested that inhibition of RBP2 contributed to tumor suppression by pRB. Here we show RBP2 loss promotes cellular differentiation in vitro. We use mouse expression array 430 2.0 array to profile gene expression patterns of Rbp2f/f and Rbp2-/- ES cells in ES cell medium and after 6 days in ES cell medium without LIF.

Publication Title

No associated publication

Alternate Accession IDs

E-GEOD-26446

Sample Metadata Fields

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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