11基因芯片2007范例.ppt

* 1)用基因表达芯片探索药物作用机理 * 探索药物作用机理 treatment with oestrogen and tamoxifen它莫西芬 (a selective oestrogen receptor modulator). Pilot experiments were done first to determine the optimal duration of treatment, and we found that a 3-hr treatment of cEECs内皮细胞瘤 with 17b-oestradiol (E2) yielded the greatest coverage (about 75%) of currently known ER target genes. Thus, we chose a 3-hr treatment for subsequent experiments. * Endometrioid carcinoma samples (cEECs) and from samples of normal endometrial epithelium (nEECs) * 作用机理 Nature Review,2006,6 * 它莫西芬的代谢通路 * 基因调控的复杂性(多层次) Information Functional Components Cellular Pathways Cellular Processes Cellular Phenotype * Signal Transduction in a Cell from Downward, Nature, August (2001) * 2）信号通路分析 Powerful capabilities to visualize and manipulate pathways Genes automatically placed on KEGG and GenMaPP pathways and linked with expression data Pathways are easily converted to genelists for further analysis Seamless integration with popular pathway tools, such as Ariadne Genomics’ PathwayAssist * 信号通路数据库 GenMapp KEGG SPAD www.grt.kyushu-u.ac.jp/spad/ BioCarta /pathfiles PathwayAssist (软件) * Pathway Analysis in GeneSpring Step 1: Find list of interesting genes in GeneSpring * Pathway Analysis in GeneSpring Step 2: Run script to automatically find which target genes are members of which pathways * Pathway Analysis in GeneSpring Step 3: Visually inspect important genes and pathways identified through the script using the “split window” function in GeneSpring * Pathway Analysis in GeneSpring Step 4: View important genes’ expression profiles on the pathway image * 细胞信号通路数据库 AfCS - The Alliance for Cellular Signaling Reconstructing Networks Legacy Data AfCS Data Protein Interactions Microarray Data Biochemical Pathways Yeast Two-Hybrid Data RNAi Data Protein Data Perturbation Data Microscopy Data Published Literature * 3）表达模式分析 * 人不同部位分离培养的成纤维细胞 * 不同的成纤维细胞表达谱有明显差异 1600 genes 50 fibroblasts 分层聚类分析 * 同源异型(Hox)基因的表达 * 不同部位人