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accession-icon GSE13168
Effects of glucocorticoids and Protein Kinase A on growth factor- and 1beta- regulated gene
  • organism-icon Homo sapiens
  • sample-icon 54 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133A Array (hgu133a)

Description

Glucocorticoids (GCs) and protein kinase A (PKA)-activating agents (beta-adrenergic receptor agonists) are mainstream asthma therapies based on their ability to prevent or reverse excessive airway smooth muscle (ASM) constriction. Their abilities to regulate another important feature of asthma - excessive ASM growth are poorly understood. Recent studies have suggested that GCs render agents of inflammation such as interleukin 1beta and tumor necrosis factor alpha mitogenic to ASM, via suppression of (antimitogenic) induced cyclooxygenase-2-dependent PKA activity. To further explore the mechanistic basis of these observations, we assessed the effects of epidermal growth factor and interleukin 1beta stimulation, and the modulatory effects of GC treatment and PKA inhibition, on the ASM transcriptome by microarray analysis.

Publication Title

Glucocorticoid- and protein kinase A-dependent transcriptome regulation in airway smooth muscle.

Sample Metadata Fields

No sample metadata fields

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accession-icon GSE84446
The kinetics of ethylene-regulated changes in the root transcriptome
  • organism-icon Arabidopsis thaliana
  • sample-icon 47 Downloadable Samples
  • Technology Badge Icon Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)

Description

Ethylene-dependent gene expression was assayed by treating with 1 uM ACC, an ethylene precursor, or a control treatment to Arabidopsis seedlings by transferring 6 day old Arabidopsis grown on a a nylon mesh to fresh ACC-containing or control media

Publication Title

No associated publication

Sample Metadata Fields

Age, Specimen part, Time

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accession-icon GSE42007
A Kinetic Analysis of Auxin-mediated Changes in Transcript Abundance in Arabidopsis Reveals New Mediators of Root Growth and Development
  • organism-icon Arabidopsis thaliana
  • sample-icon 48 Downloadable Samples
  • Technology Badge Icon Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)

Description

Auxin-dependent transcript abundance was assayed by transferring 6 day old Arabidopsis grown on a a nylon mesh to IAA-containing or control media

Publication Title

A kinetic analysis of the auxin transcriptome reveals cell wall remodeling proteins that modulate lateral root development in Arabidopsis.

Sample Metadata Fields

Specimen part

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accession-icon GSE74968
Gene expression after knocking down of c-Met in breast cancer brain metastatic cell lines
  • organism-icon Homo sapiens
  • sample-icon 8 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U219 Array (hgu219)

Description

The purpose of this study is to identify the target genes of c-Met signaling in breast cancer brain metastasis.

Publication Title

No associated publication

Sample Metadata Fields

Specimen part, Cell line

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accession-icon GSE56047
Transcriptomics and methylomics of human monocytes
  • organism-icon Homo sapiens
  • sample-icon 57 Downloadable Samples
  • Technology Badge IconIllumina HumanHT-12 V4.0 expression beadchip

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Age-related variations in the methylome associated with gene expression in human monocytes and T cells.

Sample Metadata Fields

Age

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accession-icon GSE56045
Transcriptomics and methylomics of human monocytes [transcriptome]
  • organism-icon Homo sapiens
  • sample-icon 57 Downloadable Samples
  • Technology Badge IconIllumina HumanHT-12 V4.0 expression beadchip

Description

The MESA Epigenomics and Transcriptomics Study has been launched to investigate potential gene expression regulatory methylation sites in humans by examining the association between CpG methylation and gene expression in purified human monocytes from a large study population (community-dwelling participants in the Multi-Ethnic Study of Atherosclerosis (MESA)).

Publication Title

Age-related variations in the methylome associated with gene expression in human monocytes and T cells.

Sample Metadata Fields

Age

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accession-icon GSE119958
APOL1 renal-risk variants induce mitochondrial fragmentation
  • organism-icon Homo sapiens
  • sample-icon 99 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Transcriptome Array 2.0 (hta20)

Description

To assess gene expression by APOL1 genotypes in primary proximal tubule cells (PTCs), global gene expression (mRNA) levels were examined on Affymetrix HTA 2.0 arrays in primary PTCs cultured from non-diseased kidney in African Americans without CKD who underwent nephrectomy for localized renal cell carcinoma.

Publication Title

No associated publication

Sample Metadata Fields

Specimen part, Race, Time

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accession-icon GSE75535
Gene expresssion profiles of cancer of the appendix
  • organism-icon Homo sapiens
  • sample-icon 63 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133A 2.0 Array (hgu133a2)

Description

Appendiceal cancer patients treated with cytoreductive surgery (CRS) and hyperthermic intraperitoneal chemotherapy (HIPEC) often demonstrate an unpredictable variability in survival outcomes. Biomarkers predictive of CRS/HIPEC efficacy could better guide treatment decisions. In this study we hypothesized that variation in the transcriptional programming of appendiceal tumors might distinguish molecular subtypes with differential outcomes after CRS/HIPEC. The goal of this study was to investigate the potential of a prognostic gene signature to discriminate patients with favorable and unfavorable outcomes in a discovery set of patient (the original tumor series (n=24)), and confirm its prognostic value in a second validation series (the validation cohort (n=39)).

Publication Title

Prognostic Molecular Subtypes of Low-Grade Cancer of the Appendix.

Sample Metadata Fields

Sex, Age

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accession-icon GSE85921
APOL1 renal-risk variants induce mitochondrial dysfunction
  • organism-icon Homo sapiens
  • sample-icon 8 Downloadable Samples
  • Technology Badge IconIllumina HumanHT-12 V4.0 expression beadchip, Affymetrix Human Transcriptome Array 2.0 (hta20)

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

<i>APOL1</i> Renal-Risk Variants Induce Mitochondrial Dysfunction.

Sample Metadata Fields

Specimen part

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accession-icon GSE9196
Comparison of ES, EB, and Blast cells to breast epithelial, leuckocytes, endothelial and stromal cells
  • organism-icon Homo sapiens
  • sample-icon 48 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

GeneChip analysis of human embryonic stem cell differentiation into hemangioblasts: an in silico dissection of mixed phenotypes.

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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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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