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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
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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

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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
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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

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accession-icon GSE29848
Microarray data of differentiating embryonic stem cells overexpressing the transcription factor Msgn1
  • organism-icon Mus musculus
  • sample-icon 17 Downloadable Samples
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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

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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 5 Downloadable Samples
  • Technology Badge Icon

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

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accession-icon GSE12275
MEF FAN TNF
  • organism-icon Mus musculus
  • sample-icon 4 Downloadable Samples
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Description

FAN (Factor associated with neutral sphingomyelinase activation) is an adaptor protein that constitutively binds to TNF-R1. Microarray analysis was performed in fibroblasts derived from wild-type or FAN knockout mouse embryos to evaluate the role of FAN in TNF-induced gene expression.

Publication Title

FAN stimulates TNF(alpha)-induced gene expression, leukocyte recruitment, and humoral response.

Sample Metadata Fields

Treatment

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accession-icon GSE19836
A mouse Embryonic Stem Cell Bank for inducible overexpression of human chromosome 21 genes
  • organism-icon Mus musculus
  • sample-icon 32 Downloadable Samples
  • Technology Badge Icon

Description

The HSA21-mES Cell Bank includes, in triplicate clones, thirty-two murine orthologs of HSA21 genes, which can be overexpressed in an inducible manner using the Tet-off system integrated in the Rosa26 locus.

Publication Title

A mouse embryonic stem cell bank for inducible overexpression of human chromosome 21 genes.

Sample Metadata Fields

Specimen part

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accession-icon GSE13611
Affymetrix gene expression AID-GFP-positive vs AID-GFP-negative
  • organism-icon Mus musculus
  • sample-icon 8 Downloadable Samples
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Description

Affymetrix gene expression AID-GFP-positive vs AID-GFP-negative

Publication Title

The B cell mutator AID promotes B lymphoid blast crisis and drug resistance in chronic myeloid leukemia.

Sample Metadata Fields

No sample metadata fields

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accession-icon GSE110104
pre-B cells from normal control, preleukemic, fully leukemic and fully leukemic, nilotinib-treated P190 BCR/ABL transgenic mice
  • organism-icon Mus musculus
  • sample-icon 12 Downloadable Samples
  • Technology Badge Icon

Description

Precursor B-lineage acute lymphoblastic leukemia (pre-B ALL) can be subdivided into different categories based on genetic abnormalities.

Publication Title

Pre-B cell receptor-mediated cell cycle arrest in Philadelphia chromosome-positive acute lymphoblastic leukemia requires IKAROS function.

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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