PPT-Group 5: Gene Expression II

Aimee Bernard Greg Buck Manuela Gardner Erica Suchman Jenny Taylor Alan Vajda Facilitator Tina Garza Teachable Unit Epigenetics Tidbit Are you what your parents ate The Tidbit within the . limma. package. 20 March 2012. Functional Genomics. Linear regression. Fit a straight line through a set of points such that the distance from the points to the line is minimized. The slope of the line is adjusted to minimize the . Understanding:. Gene expression is regulated by proteins that bind to specific base sequences in DNA . The environment of a cell and of an organism has an impact on gene expression. Nucleosomes help to regulate transcription in eukaryotes. Vibrio cholerae . HHMI 2011. Sara Fassio. Dr. Claudia H. ä. se. Dr. Yusuke Minato . Cholera. Infection of small intestine . Causes severe diarrhea and electrolyte loss. 3-5 million cases a year. 100,000- 120,000 deaths per year . Bing Zhang. Department of Biomedical Informatics. Vanderbilt University. bing.zhang@vanderbilt.edu. Overall workflow of gene expression studies. Microarray. Biological question. Experimental . design. What does the operon model attempt to explain?. the coordinated control of gene expression . in bacteria. bacterial resistance to antibiotics. how genes move between homologous regions of DNA. the mechanism of viral attachment to a host cell. Adam Stevens, Daniel Hanson, Andrew . Whatmore. , Benoit . Destenaves. , Pierre . Chatelain. , Peter . Clayton. Supplementary Information: . Introduction. In this Supplementary Information we make available additional data that were discussed in the main manuscript. . . in wounds undergoing negative pressure wound therapy. Nate . Stearrett. (presentation format shamelessly stolen from Jeff . Elhai. ). Chronic Wounds. http://wjes.biomedcentral.com/articles/10.1186/1749-7922-2-10. University of Notre Dame. Kristin Hager, Associate Teaching Professor, Biological Sciences. Joseph O’Tousa, Professor, Biological Sciences. WH Freeman. Marc Mazzoni, Senior Editor, Life Sciences. Elaine Palucki, Editor, Adjunct Assistant Professor Biology, Brooklyn College. TUMOR SUPRESSOR PROTEINS. ATP. ENZYMES THAT CONTROL CELLULAR RESPIRATION. ADAPTIVE GENE PRODUCTS ARE ONLY REQUIRED UNDER CERTAIN CONDITIONS. GENES FOR PROTEIN DIGESTION ARE TURNED OFF WHEN THERE IS NO PROTEIN AVAILABLE. . Controlling gene expression is often accomplished by controlling transcription initiation.. Regulatory proteins . bind to DNA to either block or stimulate transcription, depending on how they interact with RNA polymerase.. analysis - outliers. V2: batch effects. V3: data imputation. What . is measured by microarrays?. Microarray normalization. Differential gene expression (DE) analysis based on microarray data. Detection of outliers. We performed a genome-wide analysis of gene expressionto identify germline- and sex-regulated genes.Using mutants that cause defects in germ cell proliferationor gametogenesis, we identiÞed sets of g Pearley Chinta and Juliet V. Spencer . Abstract. Methods. Results. Conclusions. HCMV is a widespread pathogen in the general population and can cause severe disease in immune-compromised hosts. HCMV manipulates immune responses in several ways, one of which includes encoding genes with homology to host chemokine receptors. HCMV US27 encodes a chemokine-like receptor that stimulates host gene expression. While, no chemokine ligand has been identified for US27, it is constitutively active. US27 stimulates the gene expression of antioxidant response element (ARE) regulated genes by activation of the transcription factor nuclear respiratory factor 1 (NRF-1). The goal of this project is to identify specific host and viral genes that are regulated by US27. Increased expression of antioxidant genes is likely to benefit virus infection and enable more progeny virus to be produced. Thus, a better understanding of the US27 function has the potential to lead to the development of novel antiviral therapies necessary to treat HCMV infection. . Developing Ovule,. . Embryo and Endosperm. The 2. nd. . International . Conference on Transcriptomics. Jianbo. Wang. Wuhan University, China. Background. Materials and methods. Gene expression. .