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accession-icon GSE17542
VTA neurons show an adaptive transcriptional response to MPTP which differs from SN neurons
  • organism-icon Mus musculus
  • sample-icon 18 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

Implications for neuroprotection in Parkinson's disease

Publication Title

VTA neurons show a potentially protective transcriptional response to MPTP.

Sample Metadata Fields

Specimen part, Treatment

View Samples
accession-icon GSE25096
HoxA3 is an apical regulator of hemogenic endothelium
  • organism-icon Mus musculus
  • sample-icon 12 Downloadable Samples
  • Technology Badge Iconmouse-6 v1.1 (Illumina), Agilent-014868 Whole Mouse Genome Microarray 4x44K G4122F (Feature Number version)

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

HoxA3 is an apical regulator of haemogenic endothelium.

Sample Metadata Fields

Specimen part

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accession-icon GSE25080
Genes regulated by HoxA3 in endothelial and hematopoietic progenitors
  • organism-icon Mus musculus
  • sample-icon 12 Downloadable Samples
  • Technology Badge Iconmouse-6 v1.1 (Illumina)

Description

We used a murine ES cell line in which HoxA3 expression is under control of a tetracycline-responsive element and differentiated these cells as embryoid bodies (EBs). Endothelial (Flk-1 VE-cadherin double positive, FV) and hematopoieitc progenitors (c-Kit CD41 double positive, K41) were isolated from differentiated EBs that had been induced for 6 hours by doxycycline (Dox) treatment.

Publication Title

HoxA3 is an apical regulator of haemogenic endothelium.

Sample Metadata Fields

Specimen part

View Samples
accession-icon GSE37658
Gene expression analysis of inducible ES cells overexpressing Etv2 (induced for 12 hours at day 3 of differentiation)
  • organism-icon Mus musculus
  • sample-icon 6 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

During embryogenesis, the endothelial and the hematopoietic lineages first appear during gastrulation in the blood island of the yolk sac. We have previously reported that an Ets variant gene 2 (Etv2/ER71) mutant embryo lacks hematopoietic and endothelial lineages, however, the precise roles of Etv2 in yolk sac development remains unclear.

Publication Title

Etv2 is expressed in the yolk sac hematopoietic and endothelial progenitors and regulates Lmo2 gene expression.

Sample Metadata Fields

Cell line

View Samples
accession-icon GSE45809
Phrenic neuronal determinants screen in M.Musculus
  • organism-icon Mus musculus
  • sample-icon 83 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Reconstruction of phrenic neuron identity in embryonic stem cell-derived motor neurons.

Sample Metadata Fields

Specimen part

View Samples
accession-icon GSE45808
Phrenic neuron determinant gain-of-function screen in M. musculus ES cell-derived motor neurons
  • organism-icon Mus musculus
  • sample-icon 72 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

Expression response after induction of putative phrenic neuronal determinants in ES cell-derived motor neurons was compared to a pre-determined list of genes over-expressed in FACS-sorted primary.

Publication Title

Reconstruction of phrenic neuron identity in embryonic stem cell-derived motor neurons.

Sample Metadata Fields

Specimen part

View Samples
accession-icon GSE29848
Microarray data of differentiating embryonic stem cells overexpressing the transcription factor Msgn1
  • organism-icon Mus musculus
  • sample-icon 18 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

During mammalian gastrulation, pluripotent epiblast stem cells migrate through the primitive streak to form the multipotent progenitors of the mesoderm and endoderm germ layers. Msgn1 is a bHLH transcription factor and is a direct target gene of the Wnt/bcatenin signaling pathway. Msgn1 is expressed in the mesodermal compartment of the primitive streak and is necessary for the proper development of the mesoderm. Msgn1 mutants show defects in somitogenesis leading to a lack of trunk skeletal muscles, vertebra and ribs.

Publication Title

The Wnt3a/β-catenin target gene Mesogenin1 controls the segmentation clock by activating a Notch signalling program.

Sample Metadata Fields

Specimen part, Treatment

View Samples
accession-icon GSE45807
Phrenic neuronal determinants screen in M.Musculus [1]
  • organism-icon Mus musculus
  • sample-icon 11 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

Expression response after induction of putative phrenic neuronal determinants in ES cells was compared to a pre-determined list of genes over-expressed in FACS-sorted phrenic cells.

Publication Title

Reconstruction of phrenic neuron identity in embryonic stem cell-derived motor neurons.

Sample Metadata Fields

Specimen part

View Samples
accession-icon GSE29995
Expression data from the node and primitive streak (NPS) regions from WT and Wnt3a null embryos
  • organism-icon Mus musculus
  • sample-icon 6 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

The goal of this project was to elucidate the target genes and transcriptional networks activated by Wnt3a during gastrulation, a complex morphogenetic process in which the embryonic germ layers are formed and the vertebrate body plan is established.

Publication Title

The Wnt3a/β-catenin target gene Mesogenin1 controls the segmentation clock by activating a Notch signalling program.

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon GSE65384
MLL-AF9 Expression in Hematopoietic Stem Cells Drives a Highly Invasive AML Expressing EMT-Related Genes Linked to Poor Outcome
  • organism-icon Mus musculus
  • sample-icon 26 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Gene 1.0 ST Array (mogene10st)

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

MLL-AF9 Expression in Hematopoietic Stem Cells Drives a Highly Invasive AML Expressing EMT-Related Genes Linked to Poor Outcome.

Sample Metadata Fields

Specimen part

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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