Analysis of differentially expressed genes in MDA-MB-453 after treatment with the compound sulforaphene
ABSTRACT: This study aimed to identify differential expressed genes before and after treatment with the compound sulforaphene, using the MDA-MB-453 breast cancer cell line as a model. There were a total of 2 samples examined.
Project description:This study aimed to identify differential expressed genes before and after treatment with Sulforaphene, using the A549 lung cancer cell line as a model. There were a total of 4 samples examined. Two replicates have been included (2 control samples and 2 test samples).
Project description:We report the application of single nucleotide sequencing technology for high-throughput profiling of ppargc1a in mouse hepatome cells (Hepa1-6). By obtaining 1.2 billion bases of sequence from chromatin immunoprecipitated DNA, we generated genome-wide maps of ppargc1a sin mouse hepatoma cells. We identify novel non- coding sites of ppargc1a occupation in hepatic cells for Sirt5, Idh3b, Pfkl, and Hmox2 strongly corresponds with the enrichment of enhancer -associated RNAs. Examination of the genomic disttribution of the total pool of ppargc1a and the lysine methylated (K779me) enriched pool of ppargc1a in mouse Hepa1-6 hepatoma cells.
Project description:MTDH was identified to be a functional gene in cancer progression. We overexpressed the gene in MCF7 cells and explored its functions in cancer stem cell maintainance. We used microarrays to mine the genes that were regulated by MTDH after MTDH overexpression. The MCF7 cells that were stably trasfected with empty vector or MTDH overexpressing plasmids were used for RNA extraction and hybridization on Affymetrix microarrays. We sought to find the gene that were upregulated by MTDH.
Project description:Our research focus is to study the genetic etiology and molecular mechanisms of glaucoma, a disease characterized by death of the retinal ganglion cell. The QNR/D cells, the only well validated retinal ganglion cell line, are derived from the neuroretina of quail (Coturnix coturnix japonica) embryos at 7 days gestation, and contain RGC (80%) and amacrine cell (20%) populations. With the aim of investigating the effect of candidate gene on glaucoma, the QNR/D cells were transfected in four different conditions. The RNA-Sequencing analysis on these transfected cell lines to identify the related proteins with differential expression profiles.
Project description:Based on the cDNA microarrays performed with the RNAs prepared from the differentiated cells at day 3 with or without 24 hrs TSA treatment initiated at day 2, we reveal that the upregulated gene sets were highly enriched for biological functions related to mesoderm development, mesoderm morphogenesis and others. Three independent experiments were performed at each treatment (DMSO or TSA).
Project description:miRNAs are related with the initiation and development of prostate cancer. We discover the miR-195 and miR-30 can be as a biomarker of prognosis of prostate cancer in clinical patients. miRNA functions through affecting the mRNA degradation by binding the mRNA 3’UTR. So we test the change of transcriptional profile of miR-195 and miR-30d cell line respectively to further study the function of miR-195 and miR-30d. To study the function of miR-195 and miR-30d in prostate cancer, we setup the over-expression cell line of the miR-195 and miR-30d respectively in prostate cancer cell(LNCap and DU145), then study the change of transcriptional profile in cell line by microarray experiment (Affymetrix PrimeView human gene expression). We order the over-expression plasmid of vector, miR-195 and miR-30d from System Biosciences company (Cat No: Scramble Vector PMIRH000PA-1 as Control, miR-195 PMIRH195PA-1, miR-30d PMIRH30dPA-1), and packaged the virus and construct the stable cell line (LNCaP_Control, LNCaP_mir195, LNCaP_mir30d,DU145_Control, DU145_mir195, DU145_mir30d,). We test the transcriptional profile in cell line by microarray experiment (Affymetrix PrimeView human gene expression).
Project description:We knocked down EP300 and examined the expression of lncRNA625 target genes. Gene expression profiling of knockdown samples on cDNA microarrays indicated that EP300 affected expression of several lncRNA625 downstream target genes Stably-transfected KYSE150, transfected with shlncRNA625 or shscramble, were collected and lysed in TRIzol (Life technologies). Microarray experiments were performed following the Affymetrix protocol at the Shanghai Biotechnology Corporation.