PPT-The tangled genome

Gil McVean The real heroes PanMap Genome sequencing of 10 Western Chimpanzees Patterns of small insertion and deletion are quite different and reveal details of DNA repair pathways Patterns of recombination in humans and chimpanzees are highly diverged at the finescale but largely conserved at broad scales. (Wii ™ console ) 1 Table of Contents Introduction ................................ ................................ ................................ ........... 2 Controls ..................... 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). 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?. Nikos. . Kyrpides. Genome . Biology . Program (GBP). DOE Joint Genome institute. IMG. Genes. Genomes. Functions. Metadata. Clusters. SNPs. Proteomics. Regulons. Transcriptomes. IMG Systems Data Types. 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.. Risheng. Chen et al. 2017. BMC Genomics. Oryza. sativa . Cultivated rice. Oryza. sativa . Family . Poaceae. : . grasses, corn, bamboo, wheat….. SR86. New rice cultivar domesticated from a wild strain of rice first found in 1986.. 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. On October 12, 2005, a massive fire broke out in the Wines Central wine warehouse in Vallejo, California. Within hours, the flames had destroyed 4.5 million bottles of California\'s finest wine worth more than $250 million, making it the largest destruction of wine in history. The fire had been deliberately set by a passionate oenophile named Mark Anderson, a skilled con man and thief with storage space at the warehouse who needed to cover his tracks. With a propane torch and a bucket of gasoline-soaked rags, Anderson annihilated entire California vineyard libraries as well as bottles of some of the most sought-after wines in the world. Among the priceless bottles destroyed were 175 bottles of Port and Angelica from one of the oldest vineyards in California made by Frances Dinkelspiel\'s great-great grandfather, Isaias Hellman, in 1875. Sadly, Mark Anderson was not the first to harm the industry. The history of the California wine trade, dating back to the 19th Century, is a story of vineyards with dark and bloody pasts, tales of rich men, strangling monopolies, the brutal enslavement of vineyard workers and murder. Five of the wine trade murders were associated with Isaias Hellman\'s vineyard in Rancho Cucamonga beginning with the killing of John Rains who owned the land at the time. He was shot several times, dragged from a wagon and left off the main road for the coyotes to feed on. In her new book, Frances Dinkelspiel looks beneath the casually elegant veneer of California\'s wine regions to find the obsession, greed and violence lying in wait. Few people sipping a fine California Cabernet can even guess at the Tangled Vines where its life began. 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: . 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.