PPT-Large-Scale Sequencing of the Influenza Virus Genome

Steven Salzberg Center for Bioinformatics and Computational Biology University of Maryland Institute for Advanced Computer Studies UMIACS CMSC 828H November 2010 Science 28 November 2003 Dominant influenza strains. Mayo/UIUC Summer . C. ourse in Computational Biology. Session Outline. Genome sequencing. Schematic overview of genome assembly. (a) DNA is collected from the biological sample and sequenced. (b) The output from the sequencer consists of many billions of short, unordered DNA fragments from random positions in the genome. (c) The short fragments are compared with each other to discover how they overlap. (d) The overlap relationships are captured in a large assembly graph shown as nodes representing . Mayo/UIUC Summer . C. ourse in Computational Biology. Session Outline. Genome sequencing. Schematic overview of genome assembly. (a) DNA is collected from the biological sample and sequenced. (b) The output from the sequencer consists of many billions of short, unordered DNA fragments from random positions in the genome. (c) The short fragments are compared with each other to discover how they overlap. (d) The overlap relationships are captured in a large assembly graph shown as nodes representing . From Swab to Publication. Madison I. Dunitz. 1. , David A. Coil. 1. , Jenna M. Lang. 1. , Guillaume Jospin. 1. , Aaron E. Darling. 2. , Jonathan A. Eisen. 1. UC Davis Genome Center. 1. University of California, Davis; . Mayo/UIUC Summer . C. ourse in Computational Biology. Session Outline. Genome sequencing. Schematic overview of genome assembly. (a) DNA is collected from the biological sample and sequenced. (b) The output from the sequencer consists of many billions of short, unordered DNA fragments from random positions in the genome. (c) The short fragments are compared with each other to discover how they overlap. (d) The overlap relationships are captured in a large assembly graph shown as nodes representing . Elliot J. Lefkowitz. Email. ElliotL@uab.edu. Web Site. http://www.genome.uab.edu. Office. BBRB 277A. Phone. 934-1946. Contact Information: Elliot Lefkowitz, Ph.D.. Associate Professor, Microbiology. Objectives. How we obtain the sequence of nucleotides of a species. …ACGTGACTGAGGACCGTG. CGACTGAGACTGACTGGGT. CTAGCTAGACTACGTTTTA. TATATATATACGTCGTCGT. ACTGATGACTAGATTACAG. ACTGATTTAGATACCTGAC. TGATTTTAAAAAAATATT…. PROFF. M BANERJEE. MICRO.. Myxovirus. Myxovirus. for a . gp. of envelop RNA viruses . charecterised. by their ability to adsorb onto . mucoprotrein. receptors on erythrocytes causing . hemagglutination. Orthomyxoviridae family of viruses. RNA enveloped viruses that make up three genera. Influenzavirus A. Influenzavirus B. Influenzavirus C. The type A viruses are the most virulent among the three, genetically diverse and infecting human, birds and animals. The influenza virus group consists of three enveloped RNA members of the family Orthomyxoviridae:. influenza A, B, and C. . Influenza A . viruses are further classified into hemagglutinin (H) and neuraminidase. Whole genome sequencing of babies REASONS FOR USING WHOLE GENOME SEQUENCING IN BABIES There are a number of possible reasons for carrying out whole genome or exome sequencing Seeking a diagnosis for a for suspected cancer Information for patients and family members Genomic Medicine Service NHS What is your genome? Your genome is the information needed to build the human body and keep it health RNA virus. of the family . Orthomyxoviridae. that is responsible for the infectious disease . influenza. (or most commonly referred to as flu) in birds, various mammals (such as pigs) and humans. Typically, influenza is characterized by fever, sore throat, chills and other non-specific symptoms, it is a much more severe disease. It is spread around the world in seasonal epidemics and according to World Health Organization, these annual epidemics result in about three to five million cases of severe illness, and about 250 000 to 500 000 deaths.. from NHGRI’s . Planning . Workshop on the Future Opportunities . for . Genome Sequencing . & Beyond. Mark Gerstein & Rick Myers. Recommendations related to genome function. . Part 1: Workshop summary (Mark). Acid Substitutions. Emma . Roth. 1. , Brian Aevermann. 1. , . Vinita . Puri. 2. , . Nadia . Fedorova. 2. , . Susmita . Shrivastava. 2. , . Lihui Wu, Paolo . Amedeo. 2. , . Rafael . Medina. 3. , . Gene .