Difference between revisions of "Aporras1 Week 12"

Revision as of 22:38, 20 November 2017

User page: Antonio Porras

Team page: JASPAR the Friendly Ghost

Assignment page: Week 12 Assignment

Presentation Prep

In preparation for your journal club presentation, you will each individually complete the following assignment on your individual journal page.

1. Make a list of at least 10 terms for which you did not know the definitions when you first read the article. Define each of the terms. You can use the glossary in any molecular biology, cell biology, or genetics text book as a source for definitions, or you can use one of many available online biological dictionaries (also see the BIOL 367 LibGuide for e-book dictionaries). Cite your sources for the definitions by providing an in text citation that corresponds to an entry in you References section. Use APA formatting and provide a hyperlink to the URL if it is a web citation. Each definition must have its own citation, even if you used the same overall source.

Terms, Definitions, & Citations

1. YPD media: "YPD medium is a complex medium often used for growing S. cerevisiae. It is composed of yeast extract (for vitamins and other nutrients), peptone (broken down proteins), and glucose (the energy source for the yeast). After the solution is prepared, it is autoclaved so that it is sterile when used."

(n.d.). Retrieved November 19, 2017, from http://fg.cns.utexas.edu/fg/protocol%3A_YPD_plates.html

2. Method of Chomczynski and Sacchi: "RNA isolation by a single extraction with an acid guanidinium thiocyanate-phenol-chloroform mixture is described. The method provides a pure preparation of undegraded RNA in high yield and can be completed within 4 h. It is particularly useful for processing large numbers of samples and for isolation of RNA from minute quantities of cells or tissue samples."

Chomczynski, P., & Sacchi, N. (1987). Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction. Analytical biochemistry, 162(1), 156-159.

3. Correspondence analysis: "Correspondence analysis is a statistical technique that provides a graphical representation of cross tabulations (which are also known as cross tabs, or contingency tables). Cross tabulations arise whenever it is possible to place events into two or more different sets of categories, such as product and location for purchases in market research or symptom and treatment in medical testing."

Yelland, P. M. (2010). An introduction to correspondence analysis. Math. J, 12, 1-23.

4.

Outline of Article

1. Write an outline of the article. The length should be a minimum of the equivalent of 2 pages of standard 8 1/2 by 11 inch paper (you can use the "Print Preview" option in your browser at 100% scale to see the length). Your outline can be in any form you choose, but you should utilize the wiki syntax of headers and either numbered or bulleted lists to create it. The text of the outline does not have to be complete sentences, but it should answer the questions listed below and have enough information so that others can follow it. However, your outline should be in YOUR OWN WORDS, not copied straight from the article.
   • What is the importance or significance of this work?
   • Describe the experimental design of the microarray data, including treatments, number of replicates (biological and/or technical), dye swaps.
   • Construct a flow chart that illustrates the above.
   • Briefly state the result shown in each of the figures and tables.
   • How do the results of this study compare to the results of previous studies (See Discussion).

Acknowledgements

While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.

References

1. LMU BioDB 2017. (2017). Week 12. Retrieved November 16, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_12