# User talk:Ashley Rhoades

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(→Week 1 Journal Feedback: completed week 1 feedback) |
Current revision (12:30, 18 April 2013) (view source) (→Week 12 Journal Feedback: feedback on week 12 shared journal) |
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+ | == Week 12 Journal Feedback == | ||

+ | |||

+ | * Thank you for submitting your assignment on time. | ||

+ | * Don't forget to link to the actual assignment page from your individual journal page. | ||

+ | * The numbers you listed for profile 9's number of genes in the profile, number of expected genes, and enrichment p value did not match the screenshot of your cluster. How did this happen? | ||

+ | * The number of GO terms with a corrected p value of < 0.05 was not listed on your page. | ||

+ | * There was no paragraph that interpreted your GO results in terms of cold shock. | ||

+ | * Reb1 was left off of your list of the top 10 transcription factors from YEASTRACT. | ||

+ | * Cin5, Gln3, and Zap1, did, indeed, appear in your YEASTRACT results even though they were not in the top 10. | ||

+ | * Make sure that you go back and fix/complete these items because they will be important for your final presenation and paper. | ||

+ | |||

+ | ''— [[User:Kam D. Dahlquist|Kam D. Dahlquist]] 18:38, 17 April 2013 (EDT)'' | ||

+ | |||

+ | === Week 12 Shared Journal === | ||

+ | |||

+ | * For question 4 of the shared journal reflection, the GO terms do not necessarily include transcription factors. There ''are'' GO terms specific for transcription, but most of the terms relate to other cellular processes. YEASTRACT was telling us about which transcription factors potentially regulate the genes in the cluster, not the GO terms. | ||

+ | |||

+ | ''— [[User:Kam D. Dahlquist|Kam D. Dahlquist]] 13:30, 18 April 2013 (EDT)'' | ||

+ | |||

== Week 1 Journal Feedback == | == Week 1 Journal Feedback == | ||

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- | + | You asked: "Dr. Fitzpatrick: | |

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- | + | Do you know any funny math jokes? | |

- | + | Ashley Rhoades 01:28, 22 January 2013 (EST)" | |

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+ | My answer: Funny? not many. lotsa "groaners." I always liked farside cartoons, and now I read [http://www.xkcd.com xkcd] pretty regularly. Let's see. here's a couple. | ||

+ | |||

+ | A pair of engineers are riding around in a hot air balloon, and they get lost. Searching for help, they see a crowd in a nearby field, and they maneuver close enough to talk. They yell down "Hey, where are we?" | ||

+ | |||

+ | A long conversation ensues amongst the group, and after quite a time, one of the ground group yells up "You're in a hot air balloon." | ||

+ | |||

+ | One engineer says to the other "just our luck. mathematicians." | ||

+ | The other says "how do you know," and the first responds, "three reasons. | ||

+ | |||

+ | 1. They took forever to answer. | ||

+ | 2. The answer was perfectly accurate. | ||

+ | 3. The answer was absolutely useless." | ||

+ | |||

+ | Another has a group of engineers and a group of mathematicians sitting near each other on a train trip. The engineers note that the mathematicians only have one ticket among the group members, and they ask about it. The mathematicians say "we have worked hard to optimize our cost, and we have a traveling algorithm that only requires one ticket. You'll see." | ||

+ | |||

+ | At some point in the trip, the conductor calls "Tickets!" from up the car. The mathematicians run together to the bathroom and enter together. When the conductor knocks on the bathroom door, the mathematicians slide the ticket under it. The engineers, impressed, take note of this occurrence. | ||

+ | |||

+ | On the trip back, the two groups are again sitting together, the engineers proudly displaying their one ticket. The mathematicians remark that they have improved their algorithm, needing no ticket now. Hmm... so, the conductor calls for "Tickets!" and the engineers scramble to the loo. Soon as the door closes, the mathematicians follow, one of which knocks on the door and says "Ticket!" | ||

+ | |||

+ | '''[[User:Ben G. Fitzpatrick|Ben G. Fitzpatrick]] 13:51, 3 February 2013 (EST)''' | ||

+ | |||

+ | == Week 2 Journal Feedback == | ||

+ | |||

+ | * Thank you for submitting your assignment on time. | ||

+ | * You did a nice job of presenting and discussing your results. | ||

+ | * In future discussions, please make sure you list all the parameter values and initial conditions of your simulations. | ||

+ | * What kinds of things would you want to know about the yeast to improve the model? | ||

- | + | '''[[User:Ben G. Fitzpatrick|Ben G. Fitzpatrick]] 01:13, 4 February 2013 (EST)''' |

## Current revision

## Contents |

## Week 12 Journal Feedback

- Thank you for submitting your assignment on time.
- Don't forget to link to the actual assignment page from your individual journal page.
- The numbers you listed for profile 9's number of genes in the profile, number of expected genes, and enrichment p value did not match the screenshot of your cluster. How did this happen?
- The number of GO terms with a corrected p value of < 0.05 was not listed on your page.
- There was no paragraph that interpreted your GO results in terms of cold shock.
- Reb1 was left off of your list of the top 10 transcription factors from YEASTRACT.
- Cin5, Gln3, and Zap1, did, indeed, appear in your YEASTRACT results even though they were not in the top 10.
- Make sure that you go back and fix/complete these items because they will be important for your final presenation and paper.

*— Kam D. Dahlquist 18:38, 17 April 2013 (EDT)*

### Week 12 Shared Journal

- For question 4 of the shared journal reflection, the GO terms do not necessarily include transcription factors. There
*are*GO terms specific for transcription, but most of the terms relate to other cellular processes. YEASTRACT was telling us about which transcription factors potentially regulate the genes in the cluster, not the GO terms.

*— Kam D. Dahlquist 13:30, 18 April 2013 (EDT)*

## Week 1 Journal Feedback

- Thank you for submitting your assignment on time.
- There are a few of things that you need to fix on your individual user page and shared journal page. Please make these changes by next week's journal deadline (midnight, February 8) to earn back the points you missed on this assignment.
- You need to put the complete street address for your box at LMU.
- For your external link, use a label as part of the syntax. For example, use NY Times Health page instead of just http://www.nytimes.com/pages/health/index.html.
- For the link to your file, again, use a label. For example, use January Aquatics Pool Schedule instead of just Media: January_Aquatics_Pool_Schedule.pdf.
- Make sure that you use the summary field to record what you changed
*every time*you make a change. - You have created your template, but you actually need to
*invoke*it on your user page so that the stuff that is in there actually shows up on your page. You do this by using the syntax {{Ashley Rhoades}} at the place where you want it to appear. - On the Week 1 shared journal page, On the Week 1 shared journal page, make a link back to your user page at the top of the section where you answered the questions.

- Please feel free to delete the welcome message from OpenWetWare below.

— Kam D. Dahlquist 19:03, 30 January 2013 (EST)

Ashley, I answered your question on my user talk page. *— Kam D. Dahlquist 19:50, 24 January 2013 (EST)*

You asked: "Dr. Fitzpatrick:

Do you know any funny math jokes?

Ashley Rhoades 01:28, 22 January 2013 (EST)"

My answer: Funny? not many. lotsa "groaners." I always liked farside cartoons, and now I read xkcd pretty regularly. Let's see. here's a couple.

A pair of engineers are riding around in a hot air balloon, and they get lost. Searching for help, they see a crowd in a nearby field, and they maneuver close enough to talk. They yell down "Hey, where are we?"

A long conversation ensues amongst the group, and after quite a time, one of the ground group yells up "You're in a hot air balloon."

One engineer says to the other "just our luck. mathematicians." The other says "how do you know," and the first responds, "three reasons.

1. They took forever to answer. 2. The answer was perfectly accurate. 3. The answer was absolutely useless."

Another has a group of engineers and a group of mathematicians sitting near each other on a train trip. The engineers note that the mathematicians only have one ticket among the group members, and they ask about it. The mathematicians say "we have worked hard to optimize our cost, and we have a traveling algorithm that only requires one ticket. You'll see."

At some point in the trip, the conductor calls "Tickets!" from up the car. The mathematicians run together to the bathroom and enter together. When the conductor knocks on the bathroom door, the mathematicians slide the ticket under it. The engineers, impressed, take note of this occurrence.

On the trip back, the two groups are again sitting together, the engineers proudly displaying their one ticket. The mathematicians remark that they have improved their algorithm, needing no ticket now. Hmm... so, the conductor calls for "Tickets!" and the engineers scramble to the loo. Soon as the door closes, the mathematicians follow, one of which knocks on the door and says "Ticket!"

**Ben G. Fitzpatrick 13:51, 3 February 2013 (EST)**

## Week 2 Journal Feedback

- Thank you for submitting your assignment on time.
- You did a nice job of presenting and discussing your results.
- In future discussions, please make sure you list all the parameter values and initial conditions of your simulations.
- What kinds of things would you want to know about the yeast to improve the model?

**Ben G. Fitzpatrick 01:13, 4 February 2013 (EST)**