BIOL368/S20:Week 4

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BIOL368-01: Bioinformatics Laboratory

Loyola Marymount University

Spring 2020

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This journal entry is due on Thursday, February 13, at 12:01am Pacific time.


The learning objectives for this assignment are (in alignment with the course objectives and learning outcomes):

  • To evaluate resources for reliability, validity, accuracy, authority, and bias.
  • To recognize and care about how the biological and technological issues presented in this course relate to and affect society, our daily lives, and ourselves.
  • To continue to brainstorm ideas for your HIV Evolution research project.

Individual Journal Assignment

Homework Partners

  • You will be expected to consult with your partner, in order to complete the assignment.
  • Each partner must submit his or her own work as the individual journal entry (direct copies of each other's work is not allowed).
  • You must give the details of the interaction with your partner in the Acknowledgments section of your journal assignment.
  • Homework partners for this week are:
    • Christina and Annika
    • Jenny and Nick
    • Drew and Jack
    • Karina, Lizzy and Sahil
    • Madeleine and Maya
    • Carolyn and Nathan

Format and Content Checklist

  1. Store this journal entry as "username Week 4" (i.e., this is the text to place between the square brackets when you link to this page).
  2. Write something in the summary field each time you save an edit. You are aiming for 100%.
  3. Invoke the template that you made as part of the Week 1 assignment on your individual page.
  4. Purpose: a statement of the scholarly purpose of the assignment. Note that this is different than the learning objective stated on the assignment page. What academic purpose will be served by completing this assignment?
  5. For this week, your electronic lab notebook will consist of the assignment outline described below.
  6. Conclusion: a summary statement of the main result of exercise. It should mirror the purpose. Length should be 2-3 sentences, up to a paragraph.
  7. Acknowledgments section (see Week 1 assignment for more details.)
    • You must acknowledge your homework partner with whom you worked, giving details of the nature of the collaboration. You should include when and how you met and what content you worked on together.
    • Acknowledge anyone else you worked with who was not your assigned partner. This could be the instructor, the TA, other students in the class, or even other students or faculty outside of the class.
    • If you copied wiki syntax or a particular style from another wiki page, acknowledge that here. Provide the user name of the original page, if possible, and provide a link to the page from which you copied the syntax or style.
    • If you copied any part of the assignment or protocol and then modified it, acknowledge that here and also include a formal citation in the Reference section.
    • You must also include this statement:
    • "Except for what is noted above, this individual journal entry was completed by me and not copied from another source."
    • Sign your Acknowledgments section with your wiki signature (four tildes, ~~~~).
  8. References section (see Week 1 assignment for more details.)
    • Use the APA format.
    • Cite this assignment page.
    • Cite the readings you completed.
    • Cite any other resources you used for your page.
    • Do not include extraneous references that you do not cite or use on your page.


Because the opportunity for the Digital Citizenship Workshop came up today, we are going to wait to begin our actual bioinformatics analysis of the gp120 data until next week. This assignment for this week is a follow-up on the workshop.

  • Each student will be assigned two chapters of the book Global AIDS: Myths and Facts (on Brightspace) to summarize on their individual journal page.
  • Make a list of 10 bullet points to summarize each chapter (20 bullet points total).
  • You will give a 5-minute summary to the class next week about your assigned chapter.
    • Preface, Introduction, Basics, Conclusion: Drew, Jenny
    • Myth 1: Jenny, Annika, Maya
    • Myth 2: Annika, Christina, Maya
    • Myth 3: Christina, Carolyn, Nathan
    • Myth 4: Carolyn, Madeleine, Nathan
    • Myth 5: Madeleine, Jack
    • Myth 6: Jack, Sahil
    • Myth 7: Sahil, Lizzy
    • Myth 8: Lizzy, Karina
    • Myth 9: Karina, Nicholas
    • Myth 10: Nicholas, Drew
  • Based on the journal club discussion on the Markham et al. (1998) paper, how will you refine your question that you contributed to the Class Journal Week 3 page.

Shared Journal Assignment

  • Compose your journal entry in the shared Class Journal Week 4 page. If this page does not exist yet, go ahead and create it (congratulations on getting in first :) )
  • Create a header with your name, and then answer the questions in your own section of the page.
  • You do not need to invoke your template on the class journal page.
  • Any Acknowledgments and References you need to make should go in the appropriate sections on your individual journal page.
  • Sign your portion of the journal with the standard wiki signature shortcut (~~~~).
  • Add the category "BIOL368/S20" to the end of the wiki page (if someone has not already done so).



After the library workshop, but before you do the readings

  1. Please comment on what aspect of the Digital Citizenship Workshop that you found particularly interesting, exciting, or disturbing.
  2. How is what was talked about in the workshop relevant to your future career as a scientist or health care professional?

After you do the readings

  1. Please comment on what aspect of the readings that you found particularly interesting, exciting, or disturbing?
  2. What is the common thread amongst these three readings and how are they related to Digital Citizenship Workshop?
  3. How might you change your practice in your future career as a scientist or health care professional based on the workshop and readings?
  4. Write a discussion question based on the workshop and readings that you would like to talk about further.