PPT-Genome Sciences 373 Genome Informatics

Q uiz Section 5 April 28 2015 Bonferroni corrections The motivation is to minimize the probability of a single falsepositive test Type I Error We often define alpha 005 5 chance we reject the null hypothesis even when its true. Shai. Carmi. Pe’er. lab, Columbia University. and. The Ashkenazi Genome Consortium (TAGC). Boston. September 2013. Outline. Ashkenazi Jewish (AJ) Genetics . and TAGC. Basic Variant Statistics. Utility in AJ Medical . 2. Some genomics history. 1995: first bacterial genome, . Haemophilus influenza. , 1.8 Mbp, sequenced at TIGR. first use of whole-genome shotgun for a bacterium. Fleischmann et al. 1995 became most-cited paper of the year (>3000 citations). Hye-Chung Kum. Texas A&M Health Science Center, Dept. of Health Policy & Management. University of North Carolina at Chapel Hill, Dept. of Computer Science . (kum@tamhsc.edu). http://research.tamhsc.edu/pinformatics. Timetable for today. Time. Activity. 00:00. Introduction to the session. 00:10. Story cards . 00:20. Info cards. 00:30. Issue cards. 00:40. Discuss two key. issues. 00:45. Feedback your issues. What is DNA?. Genome: the total number of genes in an individual.. Human Genome- approx. 20,000 genes on the 46 human chromosomes.. Human Genome Project (HGP). Ongoing effort to completely map and sequence our genome.. Key considerations:. Genes . Chromosomes. C value paradox. Gene regulation. Epigenetics. Transposable elements. DNA . ……..……..mRNA……….…….Protein . Plant . Estimated # genes. Arabidposis. Key considerations:. Genes . Chromosomes. C value paradox. Gene regulation. Epigenetics. Transposable elements. DNA . ……..……..mRNA……….…….Protein . Plant . Estimated # genes. Arabidposis. tens of thousands of DNA bases in length. Fugu is thedraft sequenced after human. Its compact form and sim-sequence. We now have in hand the basic gene-leveldescription of two vertebrates. Compari tens of thousands of DNA bases in length Fugu is thedraft sequenced after human Its compact form and sim-sequence We now have in hand the basic gene-leveldescription of two vertebrates Comparing a 7 Geng / japonica ( GJ ) genome s ( Methods ), and was increased from 373 Mb to 3 95 1 Mb ( Supplementa l F ig . S 1 A ; Supplemental Table S 6 ) . For representative rice populations, we 2 appl G-OnRamp Beta Users Workshop. Wilson Leung. 07/2016. Outline. Obtain genome assemblies from NCBI. Transfer . large genomics datasets to Galaxy. Common bioinformatics file formats . D. atatypes in Galaxy. CSE291: Personal Genomics for . Bioinformaticians. 01/. 10/17. The personal genomics revolution. 23andMe. : >1 million customers . (. $200). Genographic. Project: . >800,000 customers ($150). Family Tree DNA: . An Introduction to Computers and Informatics in the Health Sciences. Sequencing Intro:. Common File Formats and Visualization Software. Christopher Taylor. Associate Professor. Department of Microbiology,. emm1. invasive Group A . Streptococcus. isolated from Belgian patients during 1994˗2013 . J. Coppens. 1. , . B. B. . Xavier,. . J. Sabirova. 1. , C. Lammens. 1. , K. Loens. 2. , S. Malhotra-Kumar.