Hhinsch Week 6 - Revision history

Hhinsch: added my screenshot of my graph

2017-10-10T06:39:02Z

added my screenshot of my graph

Hhinsch: changed the biodb reference in my references section and induced my template

2017-10-10T05:58:29Z

changed the biodb reference in my references section and induced my template

Hhinsch: added a references section

2017-10-10T05:56:32Z

added a references section

Hhinsch: added an acknowledgements section and a category

2017-10-10T05:54:42Z

added an acknowledgements section and a category

Hhinsch: added question 10

2017-10-10T05:20:48Z

added question 10

Hhinsch: added question 7 . also added question 8 and 9

2017-10-10T05:18:17Z

added question 7 . also added question 8 and 9

Hhinsch: added my answer to question 6

2017-10-10T04:54:13Z

added my answer to question 6

Hhinsch: added to my answer of question 5

2017-10-10T04:43:07Z

added to my answer of question 5

Hhinsch: okay this time i finally fixed the formatting of the questions in order to remain consistent

2017-10-10T04:40:44Z

okay this time i finally fixed the formatting of the questions in order to remain consistent

Hhinsch: worked on formatting of answer to question two once again

2017-10-10T04:30:06Z

worked on formatting of answer to question two once again

@@ Line 1: / Line 1: @@
 ==Discovery Questions from Chapter 4==
 ===Question 1===
 ===Question 2===
 Hour:

@@ Line 52: / Line 52: @@
 ==References==
-#[https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_6 https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_6]
+#LMU BioDB 2017. (2017). Week 6. Retrieved October 9, 2017, [https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_6 https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_6]
 #[https://brightspace.lmu.edu/d2l/le/content/36331/viewContent/350003/View https://brightspace.lmu.edu/d2l/le/content/36331/viewContent/350003/View]
 #[https://brightspace.lmu.edu/d2l/le/content/36331/viewContent/350004/View https://brightspace.lmu.edu/d2l/le/content/36331/viewContent/350004/View]
 #[https://www.yeastgenome.org/locus/S000001564#expression https://www.yeastgenome.org/locus/S000001564#expression]
 [[Category: Journal Entry]]

← Older revision		Revision as of 05:56, 10 October 2017
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	#While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.[[User:Hhinsch\|Hhinsch]] ([[User talk:Hhinsch\|talk]]) 22:54, 9 October 2017 (PDT)		#While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.[[User:Hhinsch\|Hhinsch]] ([[User talk:Hhinsch\|talk]]) 22:54, 9 October 2017 (PDT)

−	[Category: Journal Entry]	+	==References==
		+	#[https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_6 https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_6]
		+	#[https://brightspace.lmu.edu/d2l/le/content/36331/viewContent/350003/View https://brightspace.lmu.edu/d2l/le/content/36331/viewContent/350003/View]
		+	#[https://brightspace.lmu.edu/d2l/le/content/36331/viewContent/350004/View https://brightspace.lmu.edu/d2l/le/content/36331/viewContent/350004/View]
		+	#[https://www.yeastgenome.org/locus/S000001564#expression https://www.yeastgenome.org/locus/S000001564#expression]
		+
		+
		+	[[Category: Journal Entry]]

← Older revision		Revision as of 05:54, 10 October 2017
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	===Question 10===		===Question 10===
	Using the microarray data, we could truly verify that we deleted TUP1 or over expressed YAP1 in the experiments by looking to see if there are in fact spots that are labeled red rather than green or yellow.		Using the microarray data, we could truly verify that we deleted TUP1 or over expressed YAP1 in the experiments by looking to see if there are in fact spots that are labeled red rather than green or yellow.
		+
		+
		+	==Acknowledgments==
		+	#I worked with [[User:Zvanysse\|Zachary Van Ysseldyk]] via text communication in order to complete the deliverables of this assignment.
		+	#I worked with [[User:Cwong34\|Corinne Wong]] in person in order to complete the deliverables of this assignment.
		+	#While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.[[User:Hhinsch\|Hhinsch]] ([[User talk:Hhinsch\|talk]]) 22:54, 9 October 2017 (PDT)
		+
		+	[Category: Journal Entry]

@@ Line 38: / Line 38: @@
 I would predict that the color of the spots that represented the glucose repressed genes at the end of the sequence would also be labeled red.
-==Question9===
+===Question9===
 I would predict that the color of the spots that represented the glucose repressed genes at the end of the sequence would also be labeled red.
 ===Question 10===

← Older revision		Revision as of 05:18, 10 October 2017
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	===Question 6===		===Question 6===
	The TCA cycling genes would be induced if the glucose supply is running out because pyruvate is shifted away from the acetaldehyde and toward oxalacetate and into the TCA cycle which would cause the glucose supply of the TCA cycling genes to be repressed, thus inducing them.		The TCA cycling genes would be induced if the glucose supply is running out because pyruvate is shifted away from the acetaldehyde and toward oxalacetate and into the TCA cycle which would cause the glucose supply of the TCA cycling genes to be repressed, thus inducing them.
		+
		+	===Question 7===
		+	In order to ensure genes for enzymes in a common pathway are induced or repressed simultaneously the genome could use the same pathway in order to have the genes react in concert.
		+
		+	===Question 8===
		+	I would predict that the color of the spots that represented the glucose repressed genes at the end of the sequence would also be labeled red.
		+
		+	==Question9===
		+
		+	I would predict that the color of the spots that represented the glucose repressed genes at the end of the sequence would also be labeled red.
		+
		+	===Question 10===

← Older revision		Revision as of 04:54, 10 October 2017
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	===Question 5===		===Question 5===
	Over the course of the experiment TEF4 was repressed. I hypothesize that the change of expression due to lack of glucose is the fact that TEF4 needs glucose in order to release the eEF1A from the ribosomal complex.		Over the course of the experiment TEF4 was repressed. I hypothesize that the change of expression due to lack of glucose is the fact that TEF4 needs glucose in order to release the eEF1A from the ribosomal complex.
		+
		+	===Question 6===
		+	The TCA cycling genes would be induced if the glucose supply is running out because pyruvate is shifted away from the acetaldehyde and toward oxalacetate and into the TCA cycle which would cause the glucose supply of the TCA cycling genes to be repressed, thus inducing them.

@@ Line 27: / Line 27: @@
 Most spots would be yellow at the first time point because the ratio of the two cDNA’s is 1:1. The technical reason that spots show up as yellow is that there was no change in a gene’s transcription and experimental growth conditions. The yellow color technically comes from the computer placing a yellow color on the spots that are open reading frames. The biological reason for most of the spots showing up as yellow is that genes are expressed in both transcriptomes.
 ===Question 5===
-Over the course of the experiment TEF4 was repressed. I hypothesize that the change of expression due to lack of glucose is,
+Over the course of the experiment TEF4 was repressed. I hypothesize that the change of expression due to lack of glucose is the fact that TEF4 needs glucose in order to release the eEF1A from the ribosomal complex.

@@ Line 1: / Line 1: @@
 ==Discovery Questions from Chapter 4==
+===Question 1===
+===Question 2===
-<br>
+Hour:
 *Gene x: Black
 *Gene y: Black
 *Gene z: Black
-<br>
-'''3 Hour:'''
+Hour:
 *Gene x: Dim Red
 *Gene y: Medium Red
 *Gene z: Dim Red
-<br>
-'''5 Hour:'''
+Hour:
 *Gene x: Black
 *Gene y: Dim Green, almost Black
 *Gene z: Dim Red
-<br>
-'''9 Hour:'''
+Hour:
 *Gene x: Medium Green
 *Gene y: Bright Green
 *Gene z: Dim Red
-<br>
-#Yes Genes x and y were transcribed similarly, they both show a similar pattern which is a strike in transcription then nearing zero as time increases.
+===Question 3===
-#Most spots would be yellow at the first time point because the ratio of the two cDNA’s is 1:1. The technical reason that spots show up as yellow is that there was no change in a gene’s transcription and experimental growth conditions. The yellow color technically comes from the computer placing a yellow color on the spots that are open reading frames. The biological reason for most of the spots showing up as yellow is that genes are expressed in both transcriptomes.
+Yes Genes x and y were transcribed similarly, they both show a similar pattern which is a strike in transcription then nearing zero as time increases.
-#Over the course of the experiment TEF4 was repressed. I hypothesize that the change of expression due to lack of glucose is,
+===Question 4===