PPT-Microarray Gene Expression Analysis

Differential expression clustering networks and functional enrichment STEMREM 201 Fall 2012 Aaron Newman PhD 101712 A genomics approach to biology involves A plethora of . dickkopf. 1 . in the bovine . morula.  . Anna C. . Denicol. , Kyle B. Dobbs and Peter J. Hansen. Department of Animal Sciences,. . DH Barron Reproductive and Perinatal Biology Research Program, and Genetics Institute, . BMI/IBGP 730 . . Kun Huang. Department of Biomedical Informatics. The Ohio State University. Autumn 2010. Introduction to . gene expression . microarray. A . middle-man’s . approach. Applications of microarray. Class name – VIH. Course name - ZOO-Biotech. (Rohit). DNA MICROARRAY. Introduction. As we know that for molecular characterisation of any gene/genome, nucleotide sequences are required.. Understanding the genome function by analysing the genes and the ways the genes expressed by the genome have a key importance.. Amy Caudy. Lewis-Sigler Fellow. Outline . Microarray platforms. Uses of microarrays . Labeling approaches . Experimental considerations . Emerging technologies . Hybridization – the fundamental principle of array analysis. - Overview -. Why gene expression analysis?. Quantification of mRNA transcript abundance. High specificity, +/- high through-put. Requires sequence knowledge. Considerations. Experimental question. Species limitations . MICRO ARRAY (BIOCHIPS). A . semiconductor . device. It . is used to detect the DNA makeup of a human cell. .. M. icro . arrays contain millions of DNA strands designed to . pair . with their other half as the liquefied human cells are poured over . Transcriptomic. (and other . omic. ) Data Analysis in Bioinformatics. Outline. What is . transcriptome. Basic techniques to obtain . transcriptomic. data. Computational . and statistical methods involved in . transcriptomic. ) . data analysis. Ståle. . Nygård. , Bioinformatics core facility, OUS/UiO. staaln@ifi.uio.no. Gene expression. Gene expression is the process by which information from a gene is used in the synthesis of a functional gene product.. Peptide intensity vs m/z. Previous Lecture: . Proteomics Informatics. Gene Expression Analysis (I). This Lecture. Learning Objectives. Microarray experimental details. Microarray data formats. QC analysis and data exploration. and . Data Analysis . Roy Williams . PhD . Sanford | Burnham Medical Research Institute . Microarray Revolution. Idea. : measure the amount of. . mRNA. . to see which. . genes. . are being. . expressed. 20 18 , Vol. 9 http://www. jcancer .org 22 49 J J o o u u r r n n a a l l o o f f C C a a n n c c e e r r 201 8 ; 9 ( 1 3 ) : 2249 - 2 265 . doi: 10.7150/ jca . 24744 Review Gene Expression Detecti What is measured by microarrays?. Microarray normalization. Differential gene expression (DE) analysis based on microarray data. Detection of outliers. RNAseq. data. DE analysis based on . RNAseq. data. V2: . data imputation . V3: batch effects. What is measured by microarrays?. Microarray normalization. Differential gene expression (DE) analysis based on microarray data. Detection of outliers. RNAseq. Shilpa. . Kaistha. Department of Microbiology. Institute of Biosciences & Biotechnology. CSJM University, Kanpur. Microarrays can be used in many types of experiments including . Genotyping. epigenetics.