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accession-icon GSE65350
Expression data from mouse embryo
  • organism-icon Mus musculus
  • sample-icon 2 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

To understand the molecular mechanism by which regulate skeletal development, we attempted to identify transcription factors that were highly expressed in developing cartilage during the embryonic stage.

Publication Title

The transcription factor Foxc1 is necessary for Ihh-Gli2-regulated endochondral ossification.

Sample Metadata Fields

Specimen part

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accession-icon GSE20726
Gene expression analysis of mouse ear samples treated with chemical allergen
  • organism-icon Mus musculus
  • sample-icon 9 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

Identification of chemical allergen inducible genes in mouse skin.

Publication Title

Development and validation of a new in vitro assay designed to measure contact allergen-triggered oxidative stress in dendritic cells.

Sample Metadata Fields

Specimen part

View Samples
accession-icon GSE53826
Expression data from bone marrow (BM) neutrophils
  • organism-icon Mus musculus
  • sample-icon 2 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

We employed GeneChip analysis to investigate the global gene expression profiles of neutrophils from BM

Publication Title

Neutrophil priming occurs in a sequential manner and can be visualized in living animals by monitoring IL-1β promoter activation.

Sample Metadata Fields

Specimen part

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accession-icon SRP076270
Comparison of human brain and spinal cord neural stem cells (NSCs)
  • organism-icon Homo sapiens
  • sample-icon 13 Downloadable Samples
  • Technology Badge IconIllumina Genome Analyzer

Description

Regional identity of several kind of human neural stem cells were assessed by RNA-Seq Overall design: We compared whole transcriptome of human fetal spinal cord, fetal brain, fetal spinal cord derived NSCs, H9-derived NSCs, H9-derived spinal cord NSCs, and UCSF4-derived spinal cord NSCs

Publication Title

Generation and post-injury integration of human spinal cord neural stem cells.

Sample Metadata Fields

Specimen part, Subject

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accession-icon GSE37431
Endothelial cell-enriched genes expression in mouse embryo
  • organism-icon Mus musculus
  • sample-icon 6 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

The early blood vessels of the embryo and yolk sac in mammals develop by aggregation of de novo forming angioblasts into a primitive vascular plexus, which then undergoes a complex remodeling process. Angiogenesis is also important for disease progression in the adult. However, the precise molecular mechanism of vascular development remains unclear.

Publication Title

Genome-wide identification of endothelial cell-enriched genes in the mouse embryo.

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon GSE7501
Genes in nonpermissive temperature-induced cell growth arrest and differentiation of astrocyte RCG-12 cells
  • organism-icon Rattus norvegicus
  • sample-icon 4 Downloadable Samples
  • Technology Badge Icon Affymetrix Rat Expression 230A Array (rae230a)

Description

We performed global scale microarray analysis to identify detailed mechanisms by which nonpermissive temperature induces cell growth arrest and differentiation in astrocyte RCG-12 cells harboring temperature-sensitive simian virus 40 large T-antigen by using an Affymetrix GeneChip system. Astrocyte RCG-12 cells used in this study were derived from primary cultured rat cortical glia cells infecting with a temperature-sensitive simian virus 40 large T-antigen. Although the cells grew continuously at the permissive temperature, the nonpermissive temperature led to cell growth arrest and differentiation. Of the 15,923 probe sets analyzed, nonpermissive temperature differentially expressed 556 probe sets by >2.0-fold.

Publication Title

Identification of genetic networks involved in the cell growth arrest and differentiation of a rat astrocyte cell line RCG-12.

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon GSE32085
Transcriptomics of the traditional Japanese medicine juzentaihoto (JTX) on germfree mice
  • organism-icon Mus musculus
  • sample-icon 24 Downloadable Samples
  • Technology Badge Icon Affymetrix Murine Genome U74A Version 2 Array (mgu74av2)

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Microarray analysis on germfree mice elucidates the primary target of a traditional Japanese medicine juzentaihoto: acceleration of IFN-α response via affecting the ISGF3-IRF7 signaling cascade.

Sample Metadata Fields

Sex, Specimen part

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accession-icon GSE32083
Transcriptomics of the traditional Japanese medicine juzentaihoto (JTX) on large intestines on germfree mice
  • organism-icon Mus musculus
  • sample-icon 12 Downloadable Samples
  • Technology Badge Icon Affymetrix Murine Genome U74A Version 2 Array (mgu74av2)

Description

Juzehtaihoto, a Japanese traditional medicine has been used for the treatment of various kinds of diseases or disorders in an enteric-flora dependent manner.

Publication Title

Microarray analysis on germfree mice elucidates the primary target of a traditional Japanese medicine juzentaihoto: acceleration of IFN-α response via affecting the ISGF3-IRF7 signaling cascade.

Sample Metadata Fields

Sex, Specimen part

View Samples
accession-icon GSE32084
Transcriptomics of the traditional Japanese medicine juzentaihoto (JTX) on small intestines on germfree mice
  • organism-icon Mus musculus
  • sample-icon 12 Downloadable Samples
  • Technology Badge Icon Affymetrix Murine Genome U74A Version 2 Array (mgu74av2)

Description

Juzehtaihoto, a Japanese traditional medicine has been used for the treatment of various kinds of disease or disorders in an enteric-flora dependent manner.

Publication Title

Microarray analysis on germfree mice elucidates the primary target of a traditional Japanese medicine juzentaihoto: acceleration of IFN-α response via affecting the ISGF3-IRF7 signaling cascade.

Sample Metadata Fields

Sex, Specimen part

View Samples
accession-icon GSE8444
Genes in nonpermissive temperature-induced cell growth arrest and differentiation of tracheal epithelial RTEC11 cells
  • organism-icon Rattus norvegicus
  • sample-icon 4 Downloadable Samples
  • Technology Badge Icon Affymetrix Rat Expression 230A Array (rae230a)

Description

We performed global scale microarray analysis to identify detailed mechanisms by which nonpermissive temperature induces cell growth arrest and differentiation in tracheal epithelial RTEC11 cells harboring temperature-sensitive simian virus 40 large T-antigen by using an Affymetrix GeneChip system. Tracheal epithelial RTEC11 cells used in this study were derived from transgenic rats harboring a temperature-sensitive simian virus 40 large T-antigen. Although the cells grew continuously at the permissive temperature, the nonpermissive temperature led to cell growth arrest and differentiation.

Publication Title

Establishment and functional characterization of a tracheal epithelial cell line RTEC11 from transgenic rats harboring temperature-sensitive simian virus 40 large T-antigen.

Sample Metadata Fields

No sample metadata fields

View Samples
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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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