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accession-icon GSE4536
Tumor stem cells more closely mirror the phenotype and genotype of primary human tumors than do cancer cell lines
  • organism-icon Homo sapiens
  • sample-icon 97 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

The concept of tumor stem cells (TSCs) provides a new paradigm for understanding tumor biology, although it remains unclear whether TSCs will prove to be a more robust model than traditional cancer cell lines. We demonstrate marked phenotypic and genotypic differences between primary human tumor-derived TSCs and their matched glioma cell lines. TSCs derived directly from primary glioblastomas harbor extensive similarities to normal NSC and recapitulate the genotype, gene expression patterns and in vivo biology of human glioblastomas. By contrast, the matched, traditionally grown tumor cell lines do not secondary to in vitro genomic alterations. These findings suggest that TSCs may be a more reliable model than many commonly utilized cancer cell lines for understanding the biology of primary human tumors. Analysis of gene expression data is described in Lee et al., Cancer Cell, 2006.

Publication Title

Tumor stem cells derived from glioblastomas cultured in bFGF and EGF more closely mirror the phenotype and genotype of primary tumors than do serum-cultured cell lines.

Alternate Accession IDs

E-GEOD-4536

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon GSE53717
Identification of Molecular Pathways Facilitating Glioma Cell Invasion In Situ
  • organism-icon Mus musculus, Homo sapiens
  • sample-icon 32 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

Gliomas are mostly incurable secondary to their diffuse infiltrative nature. Thus, specific therapeutic targeting of invasive glioma cells is an attractive concept. As cells exit the tumor mass and infiltrate brain parenchyma, they closely interact with a changing micro-environmental landscape that sustains tumor cell invasion.

Publication Title

Identification of molecular pathways facilitating glioma cell invasion in situ.

Alternate Accession IDs

E-GEOD-53717

Sample Metadata Fields

Specimen part

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accession-icon GSE68848
caArray_fine-00037: Rembrandt_GeneExpression
  • organism-icon Homo sapiens
  • sample-icon 577 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

This is Rembrandt gene expression data (Affymetrix HG-U133Plus2).

Publication Title

Rembrandt: helping personalized medicine become a reality through integrative translational research.

Alternate Accession IDs

E-GEOD-68848

Sample Metadata Fields

Specimen part, Disease, Disease stage

View Samples
accession-icon GSE19314
Sarcoidosis-specific markers from whole blood gene expression
  • organism-icon Homo sapiens
  • sample-icon 63 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

We hypothesized that microarray analyses of whole blood gene expression would identify patterns of gene expression useful in the diagnosis for sacroidosis and identify inflammatory mediators relevant to the underlying pathophysiology.

Publication Title

Sarcoidosis blood transcriptome reflects lung inflammation and overlaps with tuberculosis.

Alternate Accession IDs

E-GEOD-19314

Sample Metadata Fields

Sex, Disease, Race

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accession-icon GSE21327
Effect of Growth hormone on podocytes
  • organism-icon Homo sapiens
  • sample-icon 10 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

Transcriptome analysis of growth hormone dependant genes in glomerular podocytes

Publication Title

Growth hormone (GH)-dependent expression of a natural antisense transcript induces zinc finger E-box-binding homeobox 2 (ZEB2) in the glomerular podocyte: a novel action of gh with implications for the pathogenesis of diabetic nephropathy.

Alternate Accession IDs

E-GEOD-21327

Sample Metadata Fields

Specimen part, Treatment

View Samples
accession-icon GSE2125
isolated alveolar macrophages
  • organism-icon Homo sapiens
  • sample-icon 43 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

This series represents isolated alveolar macrophages from human subjects.

Publication Title

A distinctive alveolar macrophage activation state induced by cigarette smoking.

Alternate Accession IDs

E-GEOD-2125

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon GSE1294
Expression profile of genes in normal and Down syndrome mouse brains
  • organism-icon Mus musculus
  • sample-icon 24 Downloadable Samples
  • Technology Badge Icon Affymetrix Murine Genome U74B Version 2 Array (mgu74bv2), Affymetrix Murine Genome U74A Version 2 Array (mgu74av2)

Description

Analyses of six Ts1Cje (Down syndrome) and six normal littermate (2N) mouse brains at postnatal day 0.

Publication Title

Dosage-dependent over-expression of genes in the trisomic region of Ts1Cje mouse model for Down syndrome.

Alternate Accession IDs

E-GEOD-1294

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon GSE1281
Expression profile of genes in normal and Down syndrome mouse brains MGU74A
  • organism-icon Mus musculus
  • sample-icon 12 Downloadable Samples
  • Technology Badge Icon Affymetrix Murine Genome U74A Version 2 Array (mgu74av2)

Description

Analyses of six Ts1Cje (Down syndrome) and six normal littermate (2N) mouse brains at postnatal day 0.

Publication Title

Dosage-dependent over-expression of genes in the trisomic region of Ts1Cje mouse model for Down syndrome.

Alternate Accession IDs

E-GEOD-1281

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon GSE1282
Expression profile of genes in normal and Down syndrome mouse brains MGU74B
  • organism-icon Mus musculus
  • sample-icon 12 Downloadable Samples
  • Technology Badge Icon Affymetrix Murine Genome U74B Version 2 Array (mgu74bv2), Affymetrix Murine Genome U74A Version 2 Array (mgu74av2)

Description

Analyses of six Ts1Cje (Down syndrome) and six normal littermate (2N) mouse brains at postnatal day 0.

Publication Title

Dosage-dependent over-expression of genes in the trisomic region of Ts1Cje mouse model for Down syndrome.

Alternate Accession IDs

E-GEOD-1282

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon GSE18882
Effect of cellular and viral miRNAs on target RNA half-life in three human B-cell lines
  • organism-icon Homo sapiens
  • sample-icon 27 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Gene 1.0 ST Array (hugene10st)

Description

Total, nascent and unlabeled RNA were prepared following 1h of labeling with 100 M 4-thiouridine and 3 replicates analyzed by Affymetrix Gene ST 1.0 arrays

Publication Title

Systematic analysis of viral and cellular microRNA targets in cells latently infected with human gamma-herpesviruses by RISC immunoprecipitation assay.

Alternate Accession IDs

E-GEOD-18882

Sample Metadata Fields

Cell line

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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)

fund-icon Fund the CCDL

Developed by the Childhood Cancer Data Lab

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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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