refine.bio
  • Search
      • Normalized Compendia
      • RNA-seq Sample Compendia
  • Docs
  • About
  • My Dataset
    0
github link
Build and Download Custom Datasets
refine.bio helps you build ready-to-use datasets with normalized transcriptome data from all of the world’s genetic databases.
Showing
of 430 results
Sort by

Filters

Technology

Platform

accession-icon GSE57470
Changes in Gene Expression Profile in two Multidrug Resistant Cell Lines derived from a same Drug Sensitive Cell line
  • organism-icon Homo sapiens
  • sample-icon 9 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)

Description

Resistance to chemotherapy is one of the most relevant aspects of treatment failure in cancer. Cell lines are used as models to study resistance. We analyze the transcriptional profile of two multidrug resistant (MDR) cell lines (Lucena 1 and FEPS) derived from the same drug-sensitive cell K562. Microarray data identified 130 differentially expressed genes (DEG) between K562 vs Lucena, 1,932 between K562 vs FEPS, and 1,211 between Lucena 1 versus FEPS. The NOTCH pathway was affected in FEPS with overexpression of NOTCH2 and HEY1. The highly overexpressed gene in MDR cell was ABCB1, and both presented the ABCB1 promoter unmethylated.

Publication Title

No associated publication

Sample Metadata Fields

Cell line

View Samples
accession-icon GSE77942
Human alveolar epithelial cells (A549) exposed to cigarette smoke extract
  • organism-icon Homo sapiens
  • sample-icon 36 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Gene 1.0 ST Array (hugene10st)

Description

Human alveolar epithelial cells were exposed to cigarette smoke extract (CSE) for 1, 3 and 5 weeks at 1%, 5% and 10%, and gene expression was evaluated by complete transcriptome microarrays.

Publication Title

Cigarette Smoke Enhances the Expression of Profibrotic Molecules in Alveolar Epithelial Cells.

Sample Metadata Fields

Cell line, Time

View Samples
accession-icon GSE107677
MesenchymalEpithelial Transition in fibroblasts of human normal lungs and interstitial lung diseases
  • organism-icon Homo sapiens
  • sample-icon 18 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Gene 1.0 ST Array (hugene10st)

Description

To evaluate the possible occurrence of MET, fibroblasts from normal lungs and from interstitial lung diseases were cultured under standard conditions.

Publication Title

No associated publication

Sample Metadata Fields

Specimen part

View Samples
accession-icon GSE93041
Gene expression in the anterior cingulate cortex in mice treated with ketamine (3mg/kg) or sleep deprivation (SD) during 12 hrs., and saline as the control group.
  • organism-icon Mus musculus
  • sample-icon 9 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Gene 2.0 ST Array (mogene20st)

Description

Both, sleep deprivation and ketamine treatments are efficient and fast-acting antidepressants acting within the first 12-24 hr. post-treatment. This experiment was designed to identify if common transcriptional responses are elicited by both treatments

Publication Title

No associated publication

Sample Metadata Fields

Specimen part

View Samples
accession-icon GSE51454
The NRF2-KEAP1 pathway is an early responsive gene network in arsenic exposed lymphoblastoid cells
  • organism-icon Homo sapiens
  • sample-icon 9 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Gene 1.0 ST Array (hugene10st)

Description

Inorganic arsenic, a major environmental contaminant, has risen as an important health problem worldwide. More detailed identification of the molecular mechanisms associated with iAs exposure would help to establish better strategies for prevention and treatment. Although chronic iAs exposures have been previously studied there is little to no information regarding the early events of exposure to iAs. To better characterize the early mechanisms of iAs exposure we conducted gene expression studies using sublethal doses of iAs at two different time-points. The major transcripts differentially regulated at 2 hrs of iAs exposure included antioxidants, detoxificants and chaperones. Moreover, after 12 hrs of exposure many of the down-regulated genes were associated with DNA replication and S phase cell cycle progression. Interestingly, the most affected biological pathway by both 2 or 12 hrs of iAs exposure were the Nrf2-Keap1 pathway, represented by the highly up-regulated HMOX1 transcript, which is transcriptionally regulated by the transcription factor Nrf2. Additional Nrf2 targets included SQSTM1 and ABCB6, which were not previously associated with acute iAs exposure.

Publication Title

No associated publication

Sample Metadata Fields

Cell line

View Samples
accession-icon GSE60671
Expression data from HeLa cells with and without human recombinant TIMP-4 treatment
  • organism-icon Homo sapiens
  • sample-icon 6 Downloadable Samples
  • Technology Badge Icon Affymetrix Human Gene 1.0 ST Array (hugene10st)

Description

TIMP-4 overexpression increases tumor burden in mice, promotes progenitor cell phenotype and sensitizes cells to apoptosis, by relying on NFkB signaling

Publication Title

Tissue inhibitor of metalloproteinases-4 (TIMP-4) regulates stemness in cervical cancer cells.

Sample Metadata Fields

Specimen part, Cell line

View Samples
accession-icon GSE85113
Expression data from three rice lines (1-control, 1-transgenic and 1-negative segregant) throughout generations and under salt stress
  • organism-icon Oryza sativa
  • sample-icon 44 Downloadable Samples
  • Technology Badge Icon Affymetrix Rice (US) Gene 1.0 ST Array (rusgene11st)

Description

The approval of genetically modified (GM) crops is preceded by years of intensive research to demonstrate safety to humans and environment. We recently showed that in vitro culture stress is the major factor influencing proteomic differences of GM vs. non-GM plants. This made us question the number of generations needed to erase such memory. We also wondered about the relevance of alterations promoted by transgenesis as compared to environment-induced ones.

Publication Title

Environmental stress is the major cause of transcriptomic and proteomic changes in GM and non-GM plants.

Sample Metadata Fields

Specimen part

View Samples
accession-icon GSE12069
Mycroarray analyses reveal that plant mutagenesis may induce more transcriptomic changes than transgene insertion
  • organism-icon Oryza sativa
  • sample-icon 14 Downloadable Samples
  • Technology Badge Icon Affymetrix Rice Genome Array (rice)

Description

Controversy regarding genetically modified (GM) plants and their potential impact on human health contrasts with the tacit acceptance

Publication Title

Microarray analyses reveal that plant mutagenesis may induce more transcriptomic changes than transgene insertion.

Sample Metadata Fields

Specimen part

View Samples
accession-icon GSE51379
transcriptional changes in sweet orange in response to infection by citrus canker bacteria and their effector proteins PthAs and PthCs
  • organism-icon Citrus sinensis
  • sample-icon 20 Downloadable Samples
  • Technology Badge Icon Affymetrix Citrus Genome Array (citrus)

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Identification of putative TAL effector targets of the citrus canker pathogens shows functional convergence underlying disease development and defense response.

Sample Metadata Fields

Age, Specimen part, Time

View Samples
accession-icon GSE85029
Dido as a switchboard that regulates self-renewal and differentiation in embryonic stem cells
  • organism-icon Mus musculus
  • sample-icon 6 Downloadable Samples
  • Technology Badge Icon Affymetrix Mouse Genome 430 2.0 Array (mouse4302)

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

DIDO as a Switchboard that Regulates Self-Renewal and Differentiation in Embryonic Stem Cells.

Sample Metadata Fields

Specimen part

View Samples
...

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

Powered by Alex's Lemonade Stand Foundation

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.

BSD 3-Clause LicensePrivacyTerms of UseContact