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accession-icon GSE47798
Perinatal-Estrogen-Induced Changes in Gene Expression Related to Brain Sexual Differentiation in Mice
  • organism-icon Mus musculus
  • sample-icon 30 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

Sexual dimorphism of the behaviors or physiological functions in mammals is mainly due to the sex difference of the brain. The goal of this study is to identify genes mediating sexaul dimorphism of the brain.

Publication Title

Microarray analysis of perinatal-estrogen-induced changes in gene expression related to brain sexual differentiation in mice.

Sample Metadata Fields

Sex, Specimen part

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accession-icon GSE25118
Regulation of gene expression in ALK inhibitor CH5424802-treated NCI-H2228 xenograft tumors
  • organism-icon Mus musculus
  • sample-icon 6 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

To clarify the downstream signal pathway of EML4-ALK in NSCLC, we performed Affymetrix GeneChip analysis using ALK inhibitor CH5424802-treated NCI-H2228 xenograft tumors, and comprehensively characterized the gene expression regulated by inhibition of activated ALK.

Publication Title

CH5424802, a selective ALK inhibitor capable of blocking the resistant gatekeeper mutant.

Sample Metadata Fields

Specimen part

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accession-icon GSE18104
Effect of DJ-1 on early development in porcine nuclear transfer embryos
  • organism-icon Sus scrofa
  • sample-icon 6 Downloadable Samples
  • Technology Badge Icon Affymetrix Porcine Genome Array (porcine)

Description

We aimed to identify a reprogramming factor in mammalian oocytes. DJ-1 is one candidate gene of the factor. Inhibition of DJ-1 function in nuclear transfer embryos affected developmental abilities. The downstream effect of this DJ-1 inhibition was examined using microarrays.

Publication Title

Identification and characterization of an oocyte factor required for development of porcine nuclear transfer embryos.

Sample Metadata Fields

Disease

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accession-icon GSE21510
Clinical Significance of Osteoprotegerin Expression in Human Colorectal Cancer
  • organism-icon Homo sapiens
  • sample-icon 146 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

Purpose: This study aimed to identify a novel biomarker or a target of treatment for colorectal cancer (CRC).

Publication Title

Clinical significance of osteoprotegerin expression in human colorectal cancer.

Sample Metadata Fields

Specimen part

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accession-icon GSE50628
Gene expression analysis in children with complex seizures by influenza A (H1N1)pdm09 or rotavirus gastroenteritis
  • organism-icon Homo sapiens
  • sample-icon 27 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

The differences of clinical characteristics in complex seizures induced by influenza A(H1N1)pdm09 and rotavirus gastroenteritis are well known, but the pathogenic mechanisms remain unclear. We analyzed the gene expression profiles in the peripheral whole blood cells isolated from pediatric patients using an Affymetrix oligonucleotide microarray.

Publication Title

Gene expression analysis in children with complex seizures due to influenza A(H1N1)pdm09 or rotavirus gastroenteritis.

Sample Metadata Fields

Sex, Age, Specimen part, Disease, Disease stage, Subject

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accession-icon GSE99031
Global analysis of liver RNA from male and female Wildtype mice vs Ikbkb-deleted in hepatocyte mice fed high cholesterol and saturated fat diet (HCFD)
  • organism-icon Mus musculus
  • sample-icon 4 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Gene 1.0 ST Array (mogene10st)

Description

Hepatocyte IKK deficiency worsens HCFD-induced NASH in male but not female mice.

Publication Title

Gender difference in NASH susceptibility: Roles of hepatocyte Ikkβ and Sult1e1.

Sample Metadata Fields

Sex, Specimen part

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accession-icon GSE21876
Transcriptional regulation of ROS controls the transition from proliferation to differentiation in the root
  • organism-icon Arabidopsis thaliana
  • sample-icon 12 Downloadable Samples
  • Technology Badge Icon Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)

Description

We isolated the meristematic and elongation zones of Col-0, upb1-1 mutant and 35S::UPB1-3YFP/upb1-1 plants by micro-dissection and extracted RNA from each section independently.

Publication Title

Transcriptional regulation of ROS controls transition from proliferation to differentiation in the root.

Sample Metadata Fields

Age, Specimen part

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accession-icon GSE17494
KDM7 is a dual demethylase for histone H3 lysines 9 and 27 and functions in brain development
  • organism-icon Mus musculus
  • sample-icon 5 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

The roles of histone demethylase KDM7 in gene expression were analyzed by gene expression profiling experiments with the mouse neuroblastoma cell line Neuro2A.

Publication Title

KDM7 is a dual demethylase for histone H3 Lys 9 and Lys 27 and functions in brain development.

Sample Metadata Fields

Specimen part, Cell line

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accession-icon GSE11185
Differences between NOR1 and EWS/NOR1
  • organism-icon Homo sapiens
  • sample-icon 3 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

To examine the differences between NOR1 and its fusion gene product EWS/NOR1, we compared the gene expression profiles of NOR1- and EWS/NOR1-overexpressing 293 cells.

Publication Title

Differential transactivation by orphan nuclear receptor NOR1 and its fusion gene product EWS/NOR1: possible involvement of poly(ADP-ribose) polymerase I, PARP-1.

Sample Metadata Fields

No sample metadata fields

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accession-icon SRP139943
Transcriptional alteration after ionizing radiation exposure in human fibroblasts, iPSCs and NPCs
  • organism-icon Homo sapiens
  • sample-icon 6 Downloadable Samples
  • Technology Badge IconIllumina HiSeq 2500

Description

RNA sequencing was performed to investigate ionizing radiation-dependent transcriptional change in human pluripotent cells and differentiated cells. Overall design: Examined 3 types of cells (fibroblasts, iPS cells and neural progenitor cells) and 2 types of treatments (non IR or IR), total 6 samples were analyzed.

Publication Title

Reprogramming and differentiation-dependent transcriptional alteration of DNA damage response and apoptosis genes in human induced pluripotent stem cells.

Sample Metadata Fields

Specimen part, Treatment, Subject

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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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