Difference between revisions of "Week 8"
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The purpose of this assignment is: | The purpose of this assignment is: | ||
| − | + | * to conduct the "analyze" step of the data life cycle for a DNA microarray dataset. | |
| + | * to keep a detailed electronic laboratory notebook to facilitate reproducible research. | ||
| + | * to revisit the "Deception at Duke" case with new insights because you have analyzed your own dataset. | ||
== Individual Journal Assignment == | == Individual Journal Assignment == | ||
Revision as of 16:52, 17 October 2017
This journal entry is due on Tuesday, October 24, at 12:01 AM PDT.
Objectives
The purpose of this assignment is:
- to conduct the "analyze" step of the data life cycle for a DNA microarray dataset.
- to keep a detailed electronic laboratory notebook to facilitate reproducible research.
- to revisit the "Deception at Duke" case with new insights because you have analyzed your own dataset.
Individual Journal Assignment
- Store this journal entry as "username Week 8" (i.e., this is the text to place between the square brackets when you link to this page).
- Invoke your template on your journal entry page so that you:
- Link from your journal entry page to this Assignment page.
- Link from your journal entry to your user page.
- Add the "Journal Entry" category to the end of your wiki page.
- Because you have invoked your template on your user page, you should also have a:
- Link from your user page to this Assignment page.
- Link to your journal entry from your user page.
- Include both the Acknowledgments and References section as specified by the Week 1 assignment.
- For your assignment this week, the electronic laboratory notebook you will keep on your individual wiki page is crucial. An electronic laboratory notebook records all the manipulations you perform on the data and the answers to the questions throughout the protocol. Like a paper lab notebook found in a wet lab, it should contain enough information so that you or someone else could reproduce what you did using only the information from the notebook.
- We will be performing a series of computations on a microarray dataset, primarily using Microsoft Excel. In the interests of reproducible research, it is appropriate to copy and paste the methods from this assignment into your individual journal entry.
- You must then modify the general instructions (which are generic to the whole class) to your own data analysis, recording the specific modifications and equations that you used on your dataset.
- Record the answers to the questions posed in the protocol at the place in which they appear in the method. You do not need to separate them out in a different results section.
- All files generated in the protocol must be uploaded to the wiki and linked to from your journal entry page.
- You will write a summary paragraph that gives the conclusions from this week's analysis.
Homework Partners
Homework partners for this week are listed below. The particular dataset that you and your partner will work on is also indicated below. You are expected to consult with your partner, sharing your domain expertise, in order to complete the assignment. However, 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.
- Eddie Azinge, Emma Tyrnauer: wild type data
- Eddie Bachoura, Quinn Lanners: dASH1 data
- Mary Balducci, Simon Wroblewski: dCIN5 data
- Dina Bashoura, Zach Van Ysseldyk: dGLN3 data
- Blair Hamilton, Nicole Kalcic: dHAP4 data
- Hayden Hinsch, Arash Lari: dHMO1 data
- John Lopez, Corinne Wong: dSWI4 data
- Antonio Porras, Katie Wright: dZAP1 data
