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SRP065916
Zea mays
12 Downloadable Samples
Illumina HiSeq 2000
Description
The research of maize freezing tolerance.
Publication Title
No associated publication
Sample Metadata Fields
Specimen part
View Samples- Rattus norvegicus
- 6 Downloadable Samples
Affymetrix Rat Genome U34 Array (rgu34a)
Description
Analysis of the gene signature of steatosis associated to obesity in hepatocytes of Zucker fa/fa obese rats and their controls; identifying target genes linked to steatosis progression. or Obesity and insulin resistance-associated steatosis can be a non-inflammatory condition affecting hepatocytes or progress to steatohepatitis: a condition that can result in end-stage liver disease. Although molecular events leading to accumulation of lipid droplets in the liver have been identified individually, the complexity of the condition suggested that emergent target would be uncovered by a more comprehensive examination. Then, this study was aimed at establishing a gene signature of steatosis in hepatocytes and at identifying target genes linked to steatosis progression. Using Affymetrix oligonucleotide arrays, we compared transcriptomes of hepatocytes isolated from Zucker "fa/fa" obese rats with three different age-related grades of steatosis with those of their counterpart non-steatotic cells.
Publication Title
A subset of dysregulated metabolic and survival genes is associated with severity of hepatic steatosis in obese Zucker rats.
Sample Metadata Fields
Sex, Age, Specimen part, Disease, Disease stage
View Samples- Rattus norvegicus
- 3 Downloadable Samples
Description
Two of the most prevalent ovarian diseases affecting women's fertility and health are Primary Ovarian Insufficiency (POI) and Polycystic Ovarian Syndrome (PCOS). Previous studies have shown that exposure to a number of environmental toxicants can promote the epigenetic transgenerational inheritance of ovarian disease, including decreases in the primordial follicle pool of oocytes that are similar to what is seen in POI, and increases in ovarian cysts that are similar to what is seen in PCOS. In the current study, transgenerational changes to the transcriptome and epigenome of ovarian granulosa cells are characterized in F3 generation rats after ancestral vinclozolin or DDT exposures compared to controls. There was an increase in ovarian disease in transgenerational F3 generation vinclozolin and DDT lineage rats at one year of age compared to F3 generation controls. In purified granulosa cells from 20 day old F3 generation females 164 differentially methylated regions (DMRs) (p<1e-06) were found in the F3 generation vinclozolin lineage, and 293 DMRs (p<1e-06) in the DDT lineage, compared to controls. The long non-coding RNAs (lncRNAs) and small non-coding RNAs (sncRNAs) were found to be differentially expressed in both the vinclozolin and DDT lineages with the sncRNAs having 492 sncRNAs (p<1 x 10-4) in the vinclozolin lineage and 1,085 sncRNAs (p<1 x 10-4) in the DDT lineage. The lncRNAs were differentially expressed with 123 and 51 in the vinclozolin and DDT lineages, respectively (p<1 x 10-4). Differentially expressed mRNAs were found in the vinclozolin lineage at 174 mRNAs (p<1 x 10-4) and the DDT lineage at 212 mRNAs (p<1 x 10-4). These transgenerational epigenetic changes contribute to the dysregulation of the ovary and disease susceptibility that can occur in later life. This suggests that ancestral exposure to toxicants is potentially a major risk factor that must be considered in the molecular etiology of ovarian disease.
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
View Samples- Rattus norvegicus
- 12 Downloadable Samples
- Illumina HiSeq 2500
Description
Sympathetic hyperactivity can result from cell-autonomous changes in neurons that innervate cardiovascular target tissues. Stellate ganglia are of particular interest because the majority of sympathetic neurons innervating the heart reside there. The cardiovascular risk profiles in men and women are different. Transcriptomics provides a powerful tool for identifying genomic changes that contribute to sympathetic dysfunction in disease. Here we compared the transcriptomes of healthy stellate ganglia from adult male and female WKY rats.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part, Disease, Cell line, Treatment
View Samples- Arabidopsis thaliana
- 16 Downloadable Samples
- Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)
Description
to identify regulated genes in response to cytokinin in wild-type and 35S:ARR7 plants using the Affymetrix ATH1 full genome array.
Publication Title
Genome-wide expression profiling of ARABIDOPSIS RESPONSE REGULATOR 7(ARR7) overexpression in cytokinin response.
Sample Metadata Fields
Disease, Disease stage, Compound, Time
View Samples- Arabidopsis thaliana
- 12 Downloadable Samples
- Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)
Description
The Columbia (Col-0) ecotype of Arabidopsis thaliana was used as wild type. lbd16, lbd18 single and lbd16 lbd18 double mutants were used as mutants.
Publication Title
No associated publication
Sample Metadata Fields
Time
View Samples- Arabidopsis thaliana
- 12 Downloadable Samples
- Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)
Description
The experiment was designed to enable comparison between Columbia and ahk2/ahk3, ahk3/ahk4 double and ahk2/ahk3/ahk4 triple mutants Arabidopsis seedlings
Publication Title
No associated publication
Sample Metadata Fields
Age, Time
View Samples- Arabidopsis thaliana
- 9 Downloadable Samples
- Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)
Description
The iaa1 mutant protein impaired a variety of auxin responses by acting as a negative regulator of auxin-responsive pathway.
Publication Title
Genome-wide analysis of the auxin-responsive transcriptome downstream of iaa1 and its expression analysis reveal the diversity and complexity of auxin-regulated gene expression.
Sample Metadata Fields
Age, Compound, Time
View Samples- Homo sapiens
- 16 Downloadable Samples
- Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)
Description
Alterations in the tissue microenvironment collaborate with cell autonomous genetic changes to contribute to neoplastic progression. The importance of the microenvironment in neoplastic progression is underscored by studies demonstrating that fibroblasts isolated from a tumor stimulate the growth of preneoplastic and neoplastic cells in xenograft models. Similarly, senescent fibroblasts promote preneoplastic cell growth in vitro and in vivo. Because senescent cells accumulate with age, their presence is hypothesized to facilitate preneoplastic cell growth and tumor formation in older individuals. To identify senescent stromal factors directly responsible for stimulating preneoplastic cell growth, we carried out whole genome transcriptional profiling and compared senescent fibroblasts to their younger counterparts. We identified osteopontin (OPN) as one of the most highly elevated transcripts in senescent fibroblasts. Importantly, reduction of OPN protein levels by RNAi did not impact senescence induction in fibroblasts; however, it dramatically reduced the growth-promoting activities of senescent fibroblasts in vitro and in vivo, demonstrating that OPN is necessary for paracrine stimulation of preneoplastic cell growth. In addition, we found that recombinant OPN was sufficient to stimulate preneoplastic cell growth. Finally, we demonstrate that OPN is expressed in senescent stroma within preneoplastic lesions that arise following DMBA/TPA treatment of mice, suggesting that stromal-derived OPN-mediated signaling events impact neoplastic progression.
Publication Title
Senescent stromal-derived osteopontin promotes preneoplastic cell growth.
Sample Metadata Fields
No sample metadata fields
View Samples- Mus musculus
- 14 Downloadable Samples
- Affymetrix Mouse Gene 1.0 ST Array (mogene10st)
Description
Global gene expression patterns were determined from microarray results on day 1, 3, 5, 7, 10 and 14 during plantaris muscle hypertrophy induced by synergist ablation in young adult mice (5 months).
Publication Title
Time course of gene expression during mouse skeletal muscle hypertrophy.
Sample Metadata Fields
Sex, Age, Specimen part, Treatment, Time
View Samples