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  • elkingmorado 1:08 pm on May 23, 2017 Permalink | Reply
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    Which topic/s in class made an impact to you? Why?
    Matrices and matrix operations. In bioinformatics (my field of interest), there’s a process called SNP calling/analysis, or Single Nucleotide Polymorphism Analysis, where different sequences of different organisms are being compared, and the single change in base (Single Nucleotide Polymorphism) can cause a lot of difference in the biology of the organisms (from simple coat color to life vs death). The problem is, we deal with organism vs nucleotide position table, which can span from 1000 x 1000 to 10,000 to hundreds of thousands– very big matrices. Though I haven’t tried it yet, there can be a lot of ways I can use my newly acquired knowledge about matrices and matrix operations on SNP analysis.

    If you can summarize this course in one word or sentence, what would it be?
    Math can be enjoyable and fun!

    What would be your parting message to the class?
    This CS 130 class proved that you can enjoy while learning, and you don’t have to stress out your students with a lot of requirements weekly,and make them sacrifice their health and social life for them to learn. 🙂

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  • elkingmorado 8:25 am on May 7, 2017 Permalink | Reply
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    Fourier transform and systems biology 

    Definition of Term(s)

    System Biology – is a biology-based interdisciplinary field of study that focuses on complex interactions within biological systems. From modelling of molecular interactions, to cell processes, to ecology, systems biology plays an important role.

    Actual Paper

    On the paper “Use of Fourier Series for Analysis of Biological Systems”, the authors used Fourier transform to analyze the respiratory and circulatory systems of anesthetized dogs. This study was conducted to indicate that Fourier analysis is a valid technique for investigation of oscillatory components of the circulatory and respiratory systems.

     

     

     

     

    Reference(s):

    https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1367946/

    https://en.wikipedia.org/wiki/Systems_biology

     
  • elkingmorado 3:23 pm on February 11, 2017 Permalink | Reply
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    Symmetry in Biology 

    Dictionary definition of Symmetry in biology.

    Symmetry – “Correspondence of parts (in terms of form, size, distribution, or arrangement) on opposite sides of a dividing plane or on sides around an axis of an organims”

    Biologists use this trait as a classifying factor on describing different organisms. It is also very important in taxonomy, physiology, medicine, drug discovery, virology, microbiology, and molecular biology.

    In biology, there are three general kinds of symmetry.

    First is bilateral symmetry where you can divide your organism in a “left” and a “right” part, using an axis, and when you compare these parts they’ll look similar (wow). This is very common in vertebrates.

    Second is, radial symmetry, where given a central axis, you can divide your organism into many (usually around 4-8) parts and these parts will look the same, like pie or a pizza. Usually echinoderms and cnidarians.

    Third is, spherical symmetry, where you can divide you organism from the center. Examples are some viruses, sea invertebrates and bacteria.

     

    References:

    http://www.biology-online.org/dictionary/Symmetry

    http://www.csc.kth.se/~kootstra/download/kootstra08bmvc.pdf

    http://cfcc.edu/blogs/jrogers/files/2014/08/Invertebrate-Classification-and-Taxonomy.pdf

    Image Sources:

    http://quatr.us/math/geometry/pictures/

     

     
  • elkingmorado 10:56 am on January 29, 2017 Permalink | Reply
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    Protein Folding 

    folding

     

    Protein Folding – Protein folding is the process by which a protein structure assumes its functional shape or conformation.

    So basically, from your DNA string (ATGC), to amino acid (TQAE…) folds a 3D structure based on the charges of your AAs. Then this 3D structure dictates (generally) the function of your protein. Vectors are used to simulate the direction of aa parts for the 3d struct.

    References:

    https://academic.oup.com/bioinformatics/article/17/4/349/328221/Multi-class-protein-fold-recognition-using-support

    https://academic.oup.com/bioinformatics/article/17/4/349/328221/Multi-class-protein-fold-recognition-using-support

    http://www.scientifix.com.au/uploads/Takara%20633353%20Dist%20Protein%20Broch_f2p_web%20(1).pdf

    https://www.sciencedaily.com/terms/protein_folding.htm

     

     
  • elkingmorado 12:34 pm on January 25, 2017 Permalink | Reply
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    Late intro 

    1. What is your name?
      • El King D. Morado,
    2. What were your thoughts when you enrolled in this course?
      • IDK, math, matrix, algebra.
    3. How comfortable are you with math?
      • It’s fine, I think.
    4. What’s your dominant feeling right now?
      • Fear of math
     
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