Project description:This Study sought to understand the differential gene expression profile of Pkd2 mutant mice kidneys in the setting of miR-21 deletion 4 Wild type mice, 3 Pkd2 Knockout mice and 3 Pkd2-miR-21 knockout mice were analyzed
Project description:Purpose: Determine the differential gene expression pattern between wildtype, Pkd2-KO and Pkd2-miR-214 KO mice Methods: kidney mRNA profiles of Pkd2-KO and Pkd2-mir-214-KO mice was sequenced with N of 3 in each group Results: 972 differentially expressed transcripts were identified between Pkd2-KO kidneys and Pkd2-miR-214-KO kidneys Conclusion: Deletion of miR-214 promotes interstitial inflammation in mouse models of ADPKD
Project description:This Study sought to understand the differential gene expression profile of Pkd2 mutant mice kidneys in the setting of miR-21 deletion
Project description:The purpose of this study is to determine the proportion of patients diagnosed with Lynch syndrome in colorectal cancer patients with the loss of staining by immunohistochemistry (IHC) of any of the mismatch repair (MMR) proteins. Besides, this study aims to test the specificity and the sensitivity of detecting microsatellite instability (MSI) by next-generation sequencing, and to find out the consistency between IHC and MSI in colorectal cancer patients in China. In addition, researchers want to analyze the clinical characteristics and germline mutation of Lynch syndrome in Chinese population.
Project description:The method to analyze the microsatellite instability (MSI) status by next-generation sequencing (NGS) has been established to assess the deficiency of DNA mismatch repair (MMR) system. The aim of our study is to evaluate the feasibility and reliability of this NGS method by testing the circulating tumor DNA (ctDNA) in blood sample of advanced colorectal cancer patients. If the result is positive, the MSI status could be easily learned without the acquisition of tissue samples.
Project description:Purpose: The goal of this study is to explore early changes of gene expression in the new mouse kidney Pkd2 knockout cell model. To identify compreshensive expressional changes of genes by Pkd2 knockout, transcriptomic changes by Pkd2 knockout induced by doxycycline treatment for 6 days at two different passages were profiled and analyzed. Methods: Total RNAs were isolated from cells treated with or without doxycycline for 6 days. Four replicates of each group were generated. cDNA libraries were prepared and sequenced on Illumina HiSeq4000 platform and then sequence reads were qualified and quantified. Differential expression analysis were performed using edgeR. Results: mRNA profiles of the new mouse kidney Pkd2 knockout cell model treated with doxycycline for 6 days were generated using an optimized RNA-Seq workflow. Transcript level quantification using the STAR quant mode was performed to calculate transcript abundance in each sample. Then differential expression analysis identified the differentially expressed genes at different passages of cell culture. Conclusions: This study revealed early transcriptomic changes dependent on Pkd2 in a new in vitro Pkd2 knockout cell model of the mouse kidney.
Project description:Next Generation Sequencing (NGS) on total RNA of wild type (WT) and Y41F mutant. The goal of this study is to compare the transcriptome profile of Y41F mutant to WT cells.