Metabolic syndrome is a collection of interconnected risk factors including obesity, insulin resistance, dyslipidemia and high blood pressure. Desirably, an effective pharmacotherapy for the medical condition should be able to target multiple risk factors concurrently. Based on our literature review and preliminary studies, ellagitannin geraniin, which is a polyphenolic compound, can confer many health benefits related to metabolic syndrome, but the underlying mechanism is unclear. Thus, we aim to explore the molecular pathways of the natural product using transcriptomic analysis. As for the experimental design, Sprague Dawley rats were given starch-based control diet (CD) or high-fat diet (HFD) for 8 weeks to induce metabolic syndrome. Then, some of the rats from HFD group were treated with ellagitannin gerannin (25 mg/kg/day) via oral gavage for 4 weeks. Other rats from the CD and HFD groups were treated with vehicle (10% w/v glucose solution) via the same approach. At the end of the experiment, total RNA was isolated from the liver for sequencing to compare the transcriptomes between groups.
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View SamplesTranscriptome was performed to reveal the gene expression change in mouse thalamic LGN and MGB after visual deprivation throughing one-week dark exposure from postnatal day 21 to 28 day.
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Sex, Specimen part
View SamplesAnalysis of the molecular mechanism through which Rh2 promotes cancer cell apoptosis at the transcriptome level.
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Sex, Specimen part
View SamplesThe study aims to identify differences in gene expression in the root tissue of wild type Columbia-0 as well as Arabidopsis Mediator subunit mutants, med18 and med20 in response to the root pathogen Fusarium oxysporum. Roots were inoculated for 24 hours before harvesting for RNA isolation and paired end Illumina sequencing.
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Specimen part, Disease, Disease stage, Treatment
View SamplesAnalysis of miRNA-targeted cellular NMD substrates in HeLa cell. The hypothesis tested in the present study was that endogenous NMD substrates containing long 3' untranslated region may targeted for miRNA. Results provide important information expanding the roles of miRISC in the posttranscriptional regulation of gene expression: a new cross-talk between miRNA-mediated gene silencing and NMD.
microRNA/Argonaute 2 regulates nonsense-mediated messenger RNA decay.
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View SamplescMyc is a master regulator of transcription in growing cells. Here, we used microarray to study global transcriptomic expression of cMyc knockdown HT1080 cells to investigate cMyc- regulated gene expression.
cMyc-mediated activation of serine biosynthesis pathway is critical for cancer progression under nutrient deprivation conditions.
Specimen part, Cell line
View SamplesArabidopsis thaliana Transcriptome (Vv-circATS1-OE and WT under 4?)
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Specimen part
View SamplesBackgroundAcute coronary syndrome (ACS) is sometimes accompanied by accelerated coagulability, lipid metabolism, and inflammatory responses, which are not attributable to the cardiac events alone. We hypothesized that the liver plays a pivotal role in the pathophysiology of ACS. We simultaneously analyzed the gene expression profiles of the liver and heart during acute myocardial ischemia in mice.
Altered hepatic gene expression profiles associated with myocardial ischemia.
Sex, Specimen part
View SamplesDespite education and aggressive treatment, breast cancer (BC) remains a clinical problem. BC cells (BCCs) can migrate early to metastatic sites where they may exist in cellular dormancy for decades. Presently, there are no consensus markers for cancer stem cells (CSCs) that are involved in tumor initiation and progression, and drug resistance. The current designation of CSCs might comprise similar tumor initiating cells, but at different developmental phase. In order to understand these differences, we developed a working hierarchy of BCCs. We initiated the studies in which three BCC subsets were selected based on the relative expressions of the stem cell-linked genes, Octamer4A (Oct4A). The sorted BCCs were subjected to array analyses using Affymetrix gene chip. Hierarchical clustering indicated distinct gene expression among the three subsets. Differential gene expressions of membrane proteins validated three novel genes, TMEM-98, GPR64 and FAT4. These three genes, in combination of known markers for CSCs, CD44, CD24, aldehyde dehydrogenase 1 (ALDH1) and Oct4A, were used to stratify BCCs led to a working hierarchy of BCCs. The validity of the hierarchical BCCs was applied to blood samples from patients, during relapse, and before and after treatment. These studies resulted in the patients grouped with distinct BCCs in the circulation. The relevance of the latter findings are discussed with regards to prediction of treatment response and time of BC relapse. The findings require a larger cohort of patients in a prospective multi-center study. The stratification could be important to understand treatment response, strategies for alternative approaches, and an understanding of the interaction between particular BCC subsets and the tissue microenvironment.
Evaluation of a developmental hierarchy for breast cancer cells to assess risk-based patient selection for targeted treatment.
Specimen part, Cell line
View SamplesTo reveal the toxic mechanism of thifluzamide in zebrafish
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