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accession-icon GSE110094
Gene expression profiling of 786-O cells with ZHX2 and p65 knockdown
  • organism-icon Homo sapiens
  • sample-icon 5 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Gene 2.0 ST Array (hugene20st)

Description

We are examining the regulatory pathway of ZHX2 and p65 in clear cell renal cell carcinoma cell line 786-O

Publication Title

VHL substrate transcription factor ZHX2 as an oncogenic driver in clear cell renal cell carcinoma.

Sample Metadata Fields

No sample metadata fields

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accession-icon SRP167336
Transcriptome analysis of tumors that develop in mice following injection of AGS cell lines
  • organism-icon Homo sapiens
  • sample-icon 33 Downloadable Samples
  • Technology Badge IconIllumina HiSeq 4000

Description

RNA-seq study of tumors that develop in mice after injection of gastric carcinoma cell line, AGS, with or without Epstein-Barr virus infection

Publication Title

No associated publication

Sample Metadata Fields

Sex, Specimen part, Disease, Cell line

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accession-icon SRP167214
Transcriptome analysis of NPC xenographs and tumors that develop in mice following injection of NPC cell lines
  • organism-icon Homo sapiens
  • sample-icon 9 Downloadable Samples
  • Technology Badge IconIllumina HiSeq 4000

Description

RNA-Seq study of tumors that develop in mice after injection of nasopharyngeal carcinoma (NPC) cell line C666.1 and the xenograph tumors C15 and C17

Publication Title

No associated publication

Sample Metadata Fields

Sex, Specimen part, Disease, Cell line

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accession-icon SRP096798
Next Generation Sequencing Facilitates lncRNA Analysis of undifferentiated Periodontal ligament stem cells(uPDLSCs), differentiated Periodontal ligament stem cells without TNF-a stimulation(dPDLSCs) and TNF-a-dPDLSCs
  • organism-icon Homo sapiens
  • sample-icon 9 Downloadable Samples
  • Technology Badge IconIllumina HiSeq 4000

Description

the goal of this study are to reveal potential functions of novel lncRNAs in PDLSCs ,systematicly characterize PDLSC related lncRNAs and protein coding genes in uPDLSCs,dPDLSCs and TNF-a-dPDLSCs with Next Generation Sequencing.

Publication Title

No associated publication

Sample Metadata Fields

Sex, Specimen part, Treatment

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accession-icon SRP095307
IFN-? Stimulated MSCs RNA-Seq Profiling
  • organism-icon Homo sapiens
  • sample-icon 6 Downloadable Samples
  • Technology Badge IconIllumina Genome Analyzer II

Description

Mesenchymal stromal cells (MSCs), which have immunosuppressive and trophic abilities that are induced by inflammatory cytokines, have emerged as a promising option for cell-based therapy. The cytokine profiles vary substantially across different diseases and stages of disease progression, which has been shown to influence the curative properties of MSCs. Our knowledge about how MSCs respond systemically to cytokines is still limited. Here, we individually stimulated MSCs in vitro with IFN-?and used RNA-Seq to analyze their expression profiles.

Publication Title

No associated publication

Sample Metadata Fields

Sex, Specimen part

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accession-icon GSE50705
Xenoestrogen Dose-dependent Transcriptomal Changes in MCF-7 Human Breast Cancer Cells
  • organism-icon Homo sapiens
  • sample-icon 344 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

Transcriptome analysis of MCF-7 cells exposed for 48 hours to various concentrations of xenoestrogen chemicals.

Publication Title

Expressomal approach for comprehensive analysis and visualization of ligand sensitivities of xenoestrogen responsive genes.

Sample Metadata Fields

Cell line

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accession-icon GSE10780
Proliferative genes dominate malignancy-risk gene signature in histologically-normal breast tissue
  • organism-icon Homo sapiens
  • sample-icon 185 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

Analysis of 143 completely histologically-normal breast tissues resulted in the identification of a malignancy risk gene signature that may serve as a marker of subsequent risk of breast cancer development.

Publication Title

Proliferative genes dominate malignancy-risk gene signature in histologically-normal breast tissue.

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon GSE29623
mRNA and microRNA profile in colon cancer
  • organism-icon Homo sapiens
  • sample-icon 65 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

Complementary strand microRNAs mediate acquisition of metastatic potential in colonic adenocarcinoma.

Sample Metadata Fields

Sex

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accession-icon GSE49896
MicroRNA-150 Contributes to the Proficiency of B-Cell Receptor Signaling in Chronic Lymphocytic Leukemia by Regulating Expression of GAB1 and FOXP1 Genes
  • organism-icon Homo sapiens
  • sample-icon 95 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

We examined the microRNAs (miRNAs) expressed in chronic lymphocytic leukemia (CLL) and identified miR-150 as the most abundant, but with leukemia-cell-expression levels that varied among patients. CLL cells that expressed ZAP-70 or that used unmutated IGHV each had a median expression-level of miR-150 that was significantly lower than that of ZAP-70-negative CLL cells or those that used mutated IGHV. In samples stratified for expression of miR-150, CLL cells with low-level miR-150 expressed relatively higher levels of forkhead box P1 (FOXP1) and GRB2-associated binding protein 1 (GAB1), genes with 3 UTRs having evolutionary-conserved binding sites for miR-150. High-level expression of miR-150 could repress expression of these genes, which encode proteins that may enhance B-cell receptor (BCR) signaling, a putative CLL-growth/survival signal. Also, high-level expression of miR-150 levels was a significant independent predictor of longer treatment-free-survival (TFS) or overall survival (OS), whereas an inverse association was observed for high-level expression of GAB1 or FOXP1 for OS. This study demonstrates that expression of miR-150 can influence the relative expression of GAB1 and FOXP1 and the signaling potential of the B-cell receptor (BCR), thereby possibly accounting for the noted association of expression of miR-150 and disease outcome.

Publication Title

miR-150 influences B-cell receptor signaling in chronic lymphocytic leukemia by regulating expression of GAB1 and FOXP1.

Sample Metadata Fields

Specimen part, Disease stage

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accession-icon GSE23603
Gene expression in ovarian cancer
  • organism-icon Homo sapiens
  • sample-icon 59 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133A Array (hgu133a)

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

BAD phosphorylation determines ovarian cancer chemosensitivity and patient survival.

Sample Metadata Fields

Disease stage, 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)

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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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