PPT-Nanopore Sequencing Marcus Stoiber, PhD, LBL EGSB Postdoc

Nanopore Sequencing Outline Nanopore Sequencing Technology Raw Data Transformations and Raw Data Processing Toward Producing a Basecaller Future Directions What is Nanopore Sequencing. Nanopore. Technologies. Nanopore. Sequencing. Introduction to . nanopore. sensing . A . nanopore. : a . nano. -scale hole. . Biological: a pore-forming protein (e.g. . α. -. Hemolysin. ) in a membrane (e.g. lipid . 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 . Nanopore. Sequencing of Transmissible . Tetracyline. Plasmids Captured without Cultivation from Stream Sediment Reveals Linked Genes Encoding Resistance to Multiple Human Clinical Antibiotics . J. B. Herrick*, . Dan . Russell. Overview. Prologue: Assembly and Finishing. The Past: Sanger. The Present: Next-Gen (454, . Illumina. , …). The Future: ? (. Nanopore. , . MinION. , Single-molecule). Overview. Prologue: Assembly and Finishing. Assembly, and Alignment Methods . Andy Nagar. Agenda. Background. Next Generation Sequencing. Sequence Assembly. Sequence Alignment. Traditional Alignment Algorithms. Next Generation Alignment Algorithms. INTRODUCTION . The most commonly used technology until a few years ago – BAC. WHOLE GENOME SEQUENCING. ADVANTAGES OF WGS. Utility of next – gen sequence reads . The next-generation platforms are effecting a complete paradigm shift, not only in the organization of large-scale data production, but also in the downstream bioinformatics, IT, and LIMS support required for high data utility and correct interpretation.. large classes. 1/21/12. Diane O’Dowd. UCI, . dkodowd@uci.edu. http://. www.researchandteaching.bio.uci.edu. How would you define a classroom that is. “intellectually stimulating”. A place where . CIS 1055: Section 011. 10/01/09. Background. Largest television cable company in U.S.A.. Second largest internet provider in U.S.A.. Fourth largest telephone service in U.S.A.. 4.4 million customers in 21 states!. for . Postdoctoral . Scholar Administrators. Alistair Murray, Shannon Monahan & Nancy Child. Alway. . M106. 9:30 am – 11:30 am. Sept 25, 2014. Agenda. Policy/Background. OPA & Department Responsibilities. The Ohio State University. June 19, . 2010. 11/16/2010. 1. JET Collaboration Meeting at LBL. With many thanks to Brian Cole, . Miklos. . Gyulassy. ,. Ulrich Heinz, . Jiangyong. . Jia. , and Yuri . Kovchegov. How we obtain the sequence of nucleotides of a species. …ACGTGACTGAGGACCGTG. CGACTGAGACTGACTGGGT. CTAGCTAGACTACGTTTTA. TATATATATACGTCGTCGT. ACTGATGACTAGATTACAG. ACTGATTTAGATACCTGAC. TGATTTTAAAAAAATATT…. :. Computational Analysis of the Current State, Bottlenecks and Future Directions. Damla Senol. 1. , Jeremie Kim. 1,3. , Saugata Ghose. 1. , Can Alkan. 2. and Onur . Mutlu. 3,1. Nanopore Sequencing. University of Veterinary Medicine (TiHo) is a position for a The Postdoc will work on a CEPI-funded project, which aims at the development of a vaccine against Rift Valley fever virus (RVFV).The task Madhukar Pai, MD, PhD. Associate Professor, McGill University, Montreal. Associate Director, McGill International TB Centre. Why you should apply for fellowships and not just CIHR. In academia, the expectation is that we will all raise funds for our research.