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accession-icon GSE93371
Transcriptomic comparison of FVB mouse strain lung Cells one week upon injecting mice intraperitoneally with urethane and with the mouse lung adenocarcinoma cell line FULA 1
  • organism-icon Mus musculus
  • sample-icon 3 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Gene 2.0 ST Array (mogene20st)

Description

Transcriptomic comparison of FVB mouse strain lung Cells one week upon injecting mice intraperitoneally with either saline or Urethane. Mouse lung cell were also compared at the transcriptomic level with the mouse lung adenocarcinoma cell line FULA 1, which was established in our lab

Publication Title

IκB Kinase α Is Required for Development and Progression of <i>KRAS</i>-Mutant Lung Adenocarcinoma.

Sample Metadata Fields

Specimen part, Cell line, Treatment

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accession-icon GSE93370
Comparison of wild type mouse colon carcinoma cancer cell lines to transfected cell lines with Kras sh RNA
  • organism-icon Mus musculus
  • sample-icon 2 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Gene 1.0 ST Array (mogene10st)

Description

We compared different mouse cancer cell lines to identify their unique cell signatures.

Publication Title

Myeloid-derived interleukin-1β drives oncogenic KRAS-NF-κΒ addiction in malignant pleural effusion.

Sample Metadata Fields

Cell line, Treatment

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accession-icon GSE74309
Comparison of wild type mouse lung cancer cell lines to transfected cell lines with Nras sh RNA
  • organism-icon Mus musculus
  • sample-icon 4 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Gene 2.0 ST Array (mogene20st)

Description

We compared different mouse cancer cell lines to identify their unique cell signatures.

Publication Title

<i>NRAS</i> destines tumor cells to the lungs.

Sample Metadata Fields

Specimen part, Cell line

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accession-icon GSE58187
Comparison of mouse cancer cell line global gene expression [MG1]
  • organism-icon Mus musculus
  • sample-icon 5 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Gene 1.0 ST Array (mogene10st)

Description

We compared different mouse cancer cell lines to identify their unique cell signatures.

Publication Title

Mutant KRAS promotes malignant pleural effusion formation.

Sample Metadata Fields

Specimen part, Cell line

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accession-icon GSE58188
Comparison of mouse cancer cell line global gene expression [MG2]
  • organism-icon Mus musculus
  • sample-icon 5 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Gene 2.0 ST Array (mogene20st), Affymetrix Mouse Gene 1.0 ST Array (mogene10st)

Description

We compared different mouse cancer cell lines to identify their unique cell signatures.

Publication Title

Mutant KRAS promotes malignant pleural effusion formation.

Sample Metadata Fields

Specimen part, Cell line

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accession-icon GSE85021
Transcriptomic comparison of mouse Epithelial Trachea Cells
  • organism-icon Mus musculus
  • sample-icon 1 Downloadable Sample
  • Technology Badge Icon Affymetrix Mouse Gene 2.0 ST Array (mogene20st)

Description

We isolated mouse epithelial trachea cells from FVB mice in order to identify their transcriptomic signature.

Publication Title

Mutant KRAS promotes malignant pleural effusion formation.

Sample Metadata Fields

Specimen part

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accession-icon GSE58190
Tumor-mast cell transcriptional interactions in malignant pleural effusion
  • organism-icon Mus musculus
  • sample-icon 18 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Gene 1.0 ST Array (mogene10st), Affymetrix Mouse Gene 2.0 ST Array (mogene20st)

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Mast cells mediate malignant pleural effusion formation.

Sample Metadata Fields

Specimen part, Cell line

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accession-icon GSE58189
Gene expression profiling of mouse mast cells exposed to different cancer cell supernatants
  • organism-icon Mus musculus
  • sample-icon 8 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Gene 1.0 ST Array (mogene10st), Affymetrix Mouse Gene 2.0 ST Array (mogene20st)

Description

Nave mast cells were cultured from murine bone marrow using incubation with IL-3 alone (samples 1-4) or IL-3 and KITL (samples 5-8).

Publication Title

Mast cells mediate malignant pleural effusion formation.

Sample Metadata Fields

No sample metadata fields

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accession-icon GSE62291
Cellular retinoic acid binding protein 2 (CRABP2) inhibits tumor growth by two distinct mechanisms
  • organism-icon Homo sapiens
  • sample-icon 3 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Gene 2.0 ST Array (hugene20st)

Description

CRABP2 potently suppresses carcinoma cell growth, yet the mechanism(s) that underlie this activity remain incompletely understood. Two distinct functions are known for CRABP2: 1) the classical function of this protein is to directly deliver retinoic acid (RA) to the nuclear retinoic-acid receptorthereby activate gene expression, and 2) in the absence of RA, CRABP2 directly binds to the RNA-binding and stabilizing protein, HuR, and markedly strengthens its interactions with target mRNAs.

Publication Title

Cellular retinoic acid-binding protein 2 inhibits tumor growth by two distinct mechanisms.

Sample Metadata Fields

Specimen part, Cell line

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accession-icon GSE8349
Microarray platform comparison study of hippocampal gene expression in DCLK1 transgenic and wild-type mice
  • organism-icon Mus musculus
  • sample-icon 10 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

The aim of the present study was to compare, on a statistical basis, the performance of different microarray platforms to detect differences in gene expression in a realistic and challenging biological setting. Gene expression profiles in the hippocampus of five wild-type and five transgenic C-doublecortin-like kinase mice were evaluated with five microarray platforms: Applied Biosystems, Affymetrix, Agilent, Illumina and home-spotted oligonucleotide arrays. We observed considerable overlap between the different platforms, the overlap being better detectable with significance level-based ranking than with a p-value based cut-off. Confirming the qualitative agreement between platforms, Pathway analysis consistently demonstrated aberrances in GABA-ergic signalling in the transgenic mice, even though pathways were represented by only partially overlapping genes on the different platforms.

Publication Title

Can subtle changes in gene expression be consistently detected with different microarray platforms?

Sample Metadata Fields

No sample metadata fields

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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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