Difference between revisions of "Week 2"
From LMU BioDB 2013
Kdahlquist (Talk | contribs) (→Read: linked to MyLMUConnect instead) |
Kdahlquist (Talk | contribs) m (→Read: added end parens) |
||
| Line 8: | Line 8: | ||
* [http://www.ncbi.nlm.nih.gov/books/NBK21121/#A5818 Brown, T.A. (2002) ''Genomes 2'', Ch. 3.3.2: The link between the transcriptome and the proteome] (freely available on NCBI Bookshelf) | * [http://www.ncbi.nlm.nih.gov/books/NBK21121/#A5818 Brown, T.A. (2002) ''Genomes 2'', Ch. 3.3.2: The link between the transcriptome and the proteome] (freely available on NCBI Bookshelf) | ||
| − | * Nirenberg, M. (2004) Deciphering the Genetic Code—a Personal Account. ''Trends in Biochemical Sciences'' 29: 46-54. (on [https://mylmuconnect.blackboard.com/webapps/portal/frameset.jsp?tab_tab_group_id=_2_1url=%2Fwebapps%2Fblackboard%2Fexecute%2Flauncher%3Ftype%3DCourse%26id%3D_35506_1%26url%3D MyLMUConnect] | + | * Nirenberg, M. (2004) Deciphering the Genetic Code—a Personal Account. ''Trends in Biochemical Sciences'' 29: 46-54. (on [https://mylmuconnect.blackboard.com/webapps/portal/frameset.jsp?tab_tab_group_id=_2_1url=%2Fwebapps%2Fblackboard%2Fexecute%2Flauncher%3Ftype%3DCourse%26id%3D_35506_1%26url%3D MyLMUConnect]) |
| − | * Moody, G. (2004) ''Digital Code of Life'', Chapter 1, Hoboken, New Jersey: John Wiley & Sons, pp. 1-9. (on [https://mylmuconnect.blackboard.com/webapps/portal/frameset.jsp?tab_tab_group_id=_2_1url=%2Fwebapps%2Fblackboard%2Fexecute%2Flauncher%3Ftype%3DCourse%26id%3D_35506_1%26url%3D MyLMUConnect] | + | * Moody, G. (2004) ''Digital Code of Life'', Chapter 1, Hoboken, New Jersey: John Wiley & Sons, pp. 1-9. (on [https://mylmuconnect.blackboard.com/webapps/portal/frameset.jsp?tab_tab_group_id=_2_1url=%2Fwebapps%2Fblackboard%2Fexecute%2Flauncher%3Ftype%3DCourse%26id%3D_35506_1%26url%3D MyLMUConnect]) |
| − | * Hayes, B. (2004) Ode to the Code, ''American Scientist'' 92: 494-498. (on [https://mylmuconnect.blackboard.com/webapps/portal/frameset.jsp?tab_tab_group_id=_2_1url=%2Fwebapps%2Fblackboard%2Fexecute%2Flauncher%3Ftype%3DCourse%26id%3D_35506_1%26url%3D MyLMUConnect] | + | * Hayes, B. (2004) Ode to the Code, ''American Scientist'' 92: 494-498. (on [https://mylmuconnect.blackboard.com/webapps/portal/frameset.jsp?tab_tab_group_id=_2_1url=%2Fwebapps%2Fblackboard%2Fexecute%2Flauncher%3Ftype%3DCourse%26id%3D_35506_1%26url%3D MyLMUConnect]) |
=== Reflect === | === Reflect === | ||
Revision as of 19:45, 20 August 2013
Under Construction
The content in this page has not been finalized and is still subject to change. Use the current information at your own risk.
This journal entry is due on Friday, September 6, at midnight PDT. (Thursday night/Friday morning)
- Store your journal entry in the shared Class Journal Week 2 page. If this page does not exist yet, go ahead and create it (congratulations on getting in first :) )
- Link to your journal entry from your user page.
- Link back from the journal entry to your user page.
- NOTE: you can easily fulfill the links part of these instructions by adding them to your template and using the template on your user page.
- Sign your portion of the journal with the standard wiki signature shortcut (
~~~~). - Add the "Journal Entry" and "Shared" categories to the end of the wiki page (if someone has not already done so).
Read
- Brown, T.A. (2002) Genomes 2, Ch. 3.3.2: The link between the transcriptome and the proteome (freely available on NCBI Bookshelf)
- Nirenberg, M. (2004) Deciphering the Genetic Code—a Personal Account. Trends in Biochemical Sciences 29: 46-54. (on MyLMUConnect)
- Moody, G. (2004) Digital Code of Life, Chapter 1, Hoboken, New Jersey: John Wiley & Sons, pp. 1-9. (on MyLMUConnect)
- Hayes, B. (2004) Ode to the Code, American Scientist 92: 494-498. (on MyLMUConnect)
Reflect
Readings
- What is the biggest discovery that I made from these readings?
- What part of the readings did I understand the least?
- How was the genetic code solved experimentally?
- What is the relationship between the genetic code and a computer code?
Where’s Your Stuff?
- How easily can you find “your stuff” on your computer?
- When you double-click on icons on your computer, how do you know that icon is a program, a website, or a file?
- Have you double-clicked on a file to have an unexpected program come up? And if so, have you been able to figure out how to open that file in the right program?
Individual Journal Assignment
- Store this journal entry as "username Week 2" (i.e., this is the text to place between the square brackets when you link to this page).
- Link from your user page to this Assignment page.
- Link to your journal entry from your user page.
- Link back from your journal entry to your user page.
- Don't forget to add the "Journal Entry" category to the end of your wiki page.
- Note: you can easily fulfill all of these links by adding them to your template and then using your template on your journal entry.
The Genetic Code
- Write out the complementary strand of DNA below the strand shown and be sure to label the 5’ and 3’ ends of the complementary strand.
5’-cgtatgctaataccatgttccgcgtataacccagccgccagttccgctggcggcatttta-3’
- There are six possible reading frames in double-stranded DNA. Using the genetic code, translate all possible reading frames of this DNA sequence, keeping in mind the following rules.
- In RNA, the T becomes a U, so everywhere you see a T in the sequence, read it as a U.
- The genetic code is read in the 5’ to 3’ direction.
- Use the single-letter abbreviations for the amino acids because that is what is commonly used by computer programs.
- Wiki Hint: if you start your line with a single space character, it will appear in the grey box surrounded by the dashed line as shown above.
Where’s Your Stuff?
- Open a text editor (Notepad on Windows, TextEdit on Macs, gedit on Linux, to name a few) and create a file that contains the following text, verbatim (copy-paste suggested):
<!doctype html>
<html>
<head>
<meta charset="UTF-8" />
<title>Hello</title>
</head>
<body>
<h1>Hello File!</h1>
<p>This is a text file that contains HTML.</p>
</body>
</html>
- Save this file as a text file (.txt extension). If you see any options or controls pertaining to “rich text” or “HTML,” make sure to disable them. Double-click on your newly-saved file; the text editor should have opened it.
- Change this file’s extension to .html — remember that the computer may protest, since it is trying to protect novice users from making a mistake. Insist that you know what you’re doing. Take note of the icon after renaming the file — did it change?
- Double-click on the renamed file; a web browser should open it now, and instead of code, you should see a very simple web page.
- Write a short report on how this exercise went for you in your individual journal page.
- Answer the “after” reflection questions above.
