Project description:Effect of PAAF1 and Spt6 knock-down on gene expression. Total RNAs were extracted from HeLa-LTR-Luc cells in which PAAF1 or Spt6 had been knock down by a specific siRNA or HeLa-LTR-Luc cells that had been transfected with a control siRNA (“si Neg”). Differentially expressed genes in PAAF1 knock-down cells were identified by microarray.
Project description:SMILE, a molecule for which no information is available in the literature, is overexpressed in the blood of patients tolerating a kidney graft without treatment. We performed microarray analysis to determine cellular functions affected by SMILE silencing. Each condition of control and SMILE siRNA transfected cells was made in triplicates.
Project description:To screen potential target genes of SPIN1 in breast cancer, human gene expression microarray was performed to identify differentially expressed mRNAs in SPIN1 siRNA or negative control transfected MCF-7/ADM cells. After transfection with SPIN1 siRNA, 4409 genes were differentially expressed by >2-fold in MCF-7/ADM cells compared with negative control-transfected cells, of which 2413 were significantly downregulated and the other 1996 were upregulated. Differentially expressed genes were submitted to GO and KEGG pathway analysis.
Project description:MicroRNAs (miRNAs) are short noncoding RNA molecules regulating the expression of mRNAs. Target identification of miRNAs is computationally difficult due to the relatively low homology between miRNAs and their targets. We provide data here utilizing an experimental approach to identify targets of mmu-miR-378-3p, where mmu-miR-378-3p was overexpressed and silenced in NIH-3T3 murine fibroblasts and compared to control RNA transfected cells (RISC-free siRNA). Expression of mRNAs was profiled and differentially expressed genes following either treatment as compared to control transfected cells were identified. In this way we identified 491 significantly differentially expressed genes with more than 1.4 fold change in either comparison. One of the putative targets Akt-1 was subsequently confirmed by luciferase reporter assay.
Project description:Effect of PAAF1 and Spt6 knock-down on gene expression. Total RNAs were extracted from HeLa-LTR-Luc cells in which PAAF1 or Spt6 had been knock down by a specific siRNA or HeLa-LTR-Luc cells that had been transfected with a control siRNA (“si Neg”). Differentially expressed genes in PAAF1 knock-down cells were identified by microarray. Two biological replicates (A / B) in 3 experimental conditions (si-Neg, si-PAAF1, si-Spt6) were analyzed in a single channel experiment.
Project description:Objective: In our study, we aimed to explore the molecular mechanism of RPL8 in tumors by analyzing over-expression of RPL8 in HeLa cells. Method: Two experimental groups and control groups were setup. The experimental groups adopted Hela cells transfected by RPL8 plasmid , and the control group used the Hela cells transfected by blank plasmid. The total mRNA of the cells were extracted after transfection for 48 hours and the expression level of mRNA was detected by using high-throughput sequencing technology. Then R Bioconductor software package edgeR was used to screen differentially expressed genes and TopHat2 was used to analyze the splice site of each sample. Finally, GO and KEGG analysis of differentially expressed genes and differential alternative splicing events were performed, and the top ten functional pathways were selected for display. Results: Overexpression of RPL8 produced a large number of differentially expressed genes and differential alternative splicing. Many of these differentially expressed genes and differential alternative splicing genes were enriched in tumor-related pathways, including inflammation, positive regulation of cell proliferation , Angiogenesis, etc. In addition, many of these differentially expressed genes have been shown to be closely related to the occurrence and development of tumors. Conclusion: RPL8 can widely regulate the expression and alternative splicing of tumor-related genes.
