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CS 175 - Introduction to Bioinformatics for Genomics and Transcriptomics

Announcements

 07 August 2017 - This is the website for the CS 175 (Introduction to Bioinformatics for Genomics and Transcriptomics) class facilitated by Jan Michael Yap. Announcements and files pertinent to the class will be posted here.

    DatesTopic/ActivityMaterials
    08/07/2017Overview
    09/04/2017

    Introduction to Linux CLI and Scripting (Bio)
    DNA, RNA, and the Genome (Non-Bio)
    Central Dogma of Biology (Non-Bio)
    Linux CLI:
    Site 1
    Site 2

    Scripting:
    Site 1
    Site 2
    Site 3
    Sample Scripts
    09/11/2017

    Introduction to Programming in R (Bio)
    Molecular Evolution (Non-Bio)
    Sequencing and Measuring Gene Expression (Non-Bio)
    R:
    Ebook
    Site 1
    Site 2
    09/11/2017
    09/25/2017
    PROBLEM SET 1
    09/18/2017

    Sequence Alignment Sample Data
    09/25/2017Sequence Database Searching: BLASTBLAST Guides
    10/09/2017DNA Barcoding  
    10/09/2017
    10/23/2017
    PROBLEM SET 2
    10/16/2017Distance-Based Phylogenetic Tree Reconstruction  
    10/23/2017 Character-Based Phylogenetic Tree Reconstruction 
     10/23/2017 
    11/06/2017
    PROBLEM SET 3  
    11/06/2017Sequence Assembly  
    11/13/2017Annotations  
    11/13/2017
    11/27/2017
    PROBLEM SET 4 
     11/20/2017 Differential Gene Expression Analysis Sample R script using limma
    11/27/2017 Coexpression Analysis WGCNA Tutorial 
    11/27/2017
     12/11/2017 
    PROBLEM SET 5 
     12/04/2017 
     Pipelining
     12/11/2017  PROJECT PRESENTATIONS
    • Syllabus can be downloaded here.
    • Copy of the 2012 Code of Student Conduct can be downloaded here.