Members‎ > ‎Jan Michael C. Yap‎ > ‎

CS 175 - Introduction to Bioinformatics for Genomics and Transcriptomics

Announcements

 12 August 2018 - From the Office of the Chancellor: "UP Diliman Meteorology forecasts more heavy rains today and tomorrow. As a precautionary measure, work and classes are suspended tomorrow, Aug. 13, 2018."

As such, we will have our first lecture class on 03 September 2018 and the schedule of lectures for the semester will be adjusted accordingly. 

Stay safe, and please be guided accordingly.



06 August 2018 - 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
    08/06/2018

    OverviewMaterials:

    Linux CLI:
    Site 1
    Site 2

    Scripting:
    Site 1
    Site 2
    Site 3
    Sample Scripts

    R:
    Ebook
    Site 1
    Site 2


    Diagnostics:
    Bio Students

    Non-Bio Students
    09/03/2018Pairwise Sequence Alignment Sample Data
    09/03/2018Multiple Sequence Alignment  
    09/10/2018Sequence Database Searching: BLASTBLAST Guide
    09/10/2018
    09/24/2018
    PROBLEM SET 1
    09/17/2018Distance-Based Phylogenetic Tree Reconstruction  
    09/17/2018
    09/24/2018
     Character-Based Phylogenetic Tree Reconstruction 
    09/24/2018
     10/01/2018 
    Maximum Likelihood Phylogenetic Tree Reconstruction  
     10/08/2018 DNA Barcoding  
     10/08/2018 
    10/22/2018
    PROBLEM SET 2 
    10/15/2018
    Reference Guided Sequence Assembly  
    10/22/2018
     10/29/2018 
    De Novo Sequence Assembly  
    10/29/2018
    11/12/2018
    PROBLEM SET 3 
     11/05/2018 
     11/12/2018 
    Differential Gene Expression Analysis Microarray:
    Part 1
    Part 2

    RNA-seq:
    Link
     11/19/2018 Coexpression Analysis WGCNA Tutorial 
    11/19/2018
     12/03/2018 
    PROBLEM SET 4 
     12/03/2018  PROJECT PRESENTATIONS
    • Syllabus can be downloaded here.
    • Copy of the 2012 Code of Student Conduct can be downloaded here.