All Tutorials

  • Thu Apr 14, 1:30 pm - 3:00 pm
    402
    Walter Library

    HOMOLOGY is a module within a commercially available software package called Insight II. It is used to help build the structure of a protein by comparing its amino acid sequence with other homologous reference proteins whose atomic structures are known.


    When the sequence region of two proteins share a high level of sequence similarity, the conformations of these two regions are assumed to be conserved and the structure of the unknown protein is generated based on this reference protein structure.


    This tutorial will cover the basic fundamental theory of HOMOLOGY, as well as the basic procedure to generate protein structures from sequences using HOMOLOGY.


  • Thu Apr 14, 1:30 pm - 3:00 pm
    405
    Walter Library

    This is an introductory workshop covering the basic principles of biology. It includes DNA structure and protein synthesis, basic gene structure, and regulation. There will also be an introduction to DNA and protein sequencing.


    This workshop is designed for students and staff with limited knowledge of Biology.


  • Thu Apr 14, 12:00 pm - 1:30 pm
    402
    Walter Library

    This tutorial will provide attendees with an introduction to effectively searching literature databases (e.g., MEDLINE, INSPEC) which are well-suited to bioinformatics and computational biology. We will also explore a number of databases and tools available on the National Center for Biotechnology Information (NCBI) web site which relate to the literature. Finally, this tutorial will include a look at tools for managing personal bibliographies.


  • Thu Apr 14, 10:30 am - 12:00 pm
    402
    Walter Library

    Microarray technology is a new high-throughput system for gene expression detections. It is becoming a routine experimental technique for life science research.


    This tutorial will overview the microarray technology including gene chip design, data acquisition, data normalization, data analysis, and gene list interpretation.


    We will also introduce and compare several microarray software tools that the Institute hosts including: GeneSpring, Expressionist, and GeneTraffic.


  • Thu Apr 14, 10:30 am - 12:00 pm
    405
    Walter Library

    BLAST (Basic Local Alignment Search Tool) is a set of similarity search programs designed to compare novel sequences with previously characterized genes. It provides a method for rapid searching of nucleotide or protein databases. The results of similarity may provide important clues to the characterization and functionality of protein and nucleotide sequences.


    During this tutorial, participants will learn the following:


    - The basic principle of BLAST


    - Query and databases


    - Search strategies and result interpretation


    - Perform BLAST search at NCBI (National Center for Biotechnology Information)


    - NetBLAST and Standalone BLAST


    - BLAST search result parsing


  • Thu Apr 14, 9:00 am - 10:30 am
    402
    Walter Library

    With the development of genomics and proteomics, biologists will need to handle more and more data in their research. Bioinformatics programming, especially PERL programming, is a well-suited tool for biological data manipulation and analysis.


    This tutorial will introduce the fundamental concepts and mechanisms of computer programs using PERL language as an example. We will use practical examples such as: extraction of text files, manipulation of sequence data, parsing BLAST results, and so forth, to demonstrate how bioinformatics programming can make your work more efficient.


  • Tue Apr 12, 1:00 pm - 3:00 pm
    402
    Walter Library

    SPSS is a powerful statistical analysis and data management system in a user-friendly graphical environment. The menus and simple dialog boxes are descriptive and easy to use. Most tasks can be accomplished by clicking the mouse and the software writes the syntax for us. SPSS is useful for many applications including those in biology and medicine related fields.


    In this tutorial, topics such as loading and exploring data, t-test, one-way ANOVA, paired sample t-test, nonparametric tests, and some regression analysis will be covered.


  • Thu Apr 7, 1:00 pm - 3:00 pm
    585
    Walter Library

    In the technical computing environment MATLAB is a powerful, high-level programming language. This tutorial will help researchers solve computational problems using MATLAB functions, without spending much time dealing with programming details. This tutorial starts with a quick review on MATLAB's syntax and I/O handlers. There will be a focus on the use of computational functions and toolboxes.


    Users are encouraged to contact the User Support Staff (help@msi.umn.edu or 612-626-0802) about the computation problems you need to solve and/or some specific issues that you meet in solving them. This kind of input will be used within the tutorial whenever possible.


    This tutorial consists of two parts:


    1) A 50-minute lecture to describe the MATLAB functions

    2) An optional 1-hour, hands-on session focusing on the use of these functions for your application.


  • Tue Apr 5, 1:00 pm - 3:00 pm
    402
    Walter Library

    Genomics has changed the face of life sciences since the first draft of the human genome sequence was released in 2000. Computational tools play an important role in this change.

    The Supercomputing Institute has some of the most powerful computational genomics software tools available. These tools allow for genomics data acquisition, quality assessment, normalization, statistical analysis, functional annotation, pathway, interaction network, structural genomics, and data management.


    This tutorial will overview around 15 of the Institute/.s microarray and pathway genomics software tools and will guide users in accessing these resources.


  • Thu Mar 31, 1:00 pm - 3:00 pm
    402
    Walter Library

    Perl is a powerful interpreted language that takes very little knowledge to get started. It can be used to automate many research tasks with little effort.


    This tutorial will cover some important properties of Perl and give some examples of simple and useful Perl scripts. We will discuss modules, context, regular expressions, special variables, system calls, and references.


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