Jcowan4 Journal Week 6 - Revision history

Jcowan4: answered question

2019-10-10T04:51:19Z

answered question

Jcowan4: refences

2019-10-10T04:47:56Z

refences

Jcowan4: added acknoledgements

2019-10-10T04:45:02Z

added acknoledgements

Jcowan4: /* (Question 16, p. 121) Using the microarray data, how could you verify that you had truly deleted TUP1 or overexpressed YAP1 in the experiments described in questions 8 and 9? */ answered question

2019-10-10T04:42:55Z

‎(Question 16, p. 121) Using the microarray data, how could you verify that you had truly deleted TUP1 or overexpressed YAP1 in the experiments described in questions 8 and 9?: answered question

Jcowan4: answered question

2019-10-10T04:40:23Z

answered question

Jcowan4: answered question

2019-10-10T04:37:41Z

answered question

Jcowan4: /* (Question 12, p. 120) What mechanism could the genome use to ensure genes for enzymes in a common pathway are induced or repressed simultaneously? */ answered

2019-10-10T04:30:37Z

‎(Question 12, p. 120) What mechanism could the genome use to ensure genes for enzymes in a common pathway are induced or repressed simultaneously?: answered

Jcowan4: /* (Question, 11, p. 120) Why would TCA cycle genes be induced if the glucose supply is running out? */ answered

2019-10-10T04:26:54Z

‎(Question, 11, p. 120) Why would TCA cycle genes be induced if the glucose supply is running out?: answered

Jcowan4: answered question unsurely

2019-10-10T01:40:32Z

answered question unsurely

Jcowan4: /* (Question 7, p. 110) Were any of the genes in Figure 4.7b transcribed similarly? If so, which ones were transcribed similarly to which ones? */ answered question

2019-10-10T01:30:14Z

‎(Question 7, p. 110) Were any of the genes in Figure 4.7b transcribed similarly? If so, which ones were transcribed similarly to which ones?: answered question

← Older revision		Revision as of 04:51, 10 October 2019
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	===(Question 10, p. 118) Go to the Saccharomyces Genome Database and search for the gene TEF4; you will see it is involved in translation. Look at the time point labeled OD 3.7 in Figure 4.12, and find the TEF4 spot. Over the course of this experiment, was TEF4 induced or repressed? Hypothesize why TEF4’s change in expression was part of the cell’s response to a reduction in available glucose (i.e., the only available food).===		===(Question 10, p. 118) Go to the Saccharomyces Genome Database and search for the gene TEF4; you will see it is involved in translation. Look at the time point labeled OD 3.7 in Figure 4.12, and find the TEF4 spot. Over the course of this experiment, was TEF4 induced or repressed? Hypothesize why TEF4’s change in expression was part of the cell’s response to a reduction in available glucose (i.e., the only available food).===
		+	TEF4 appears green. It is also repressed because of the reduction in glucose production.

	===(Question, 11, p. 120) Why would TCA cycle genes be induced if the glucose supply is running out?===		===(Question, 11, p. 120) Why would TCA cycle genes be induced if the glucose supply is running out?===

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 *To my Homework Partner, [[User:ntesfaio]]. We met during class and quickly talked about the assignment.
 *Except with what is noted above, this individual journal entry was completed by me and not copied from another source.
 {{jcowan4}}

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 ===(Question 16, p. 121) Using the microarray data, how could you verify that you had truly deleted TUP1 or overexpressed YAP1 in the experiments described in questions 8 and 9?===
 If TUP1 was deleted then green spots would be scene and vice versa with YAP1. YAP1 you would see red spots.
 {{jcowan4}}

← Older revision		Revision as of 04:42, 10 October 2019
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	===(Question 16, p. 121) Using the microarray data, how could you verify that you had truly deleted TUP1 or overexpressed YAP1 in the experiments described in questions 8 and 9?===		===(Question 16, p. 121) Using the microarray data, how could you verify that you had truly deleted TUP1 or overexpressed YAP1 in the experiments described in questions 8 and 9?===
		+	If TUP1 was deleted then green spots would be scene and vice versa with YAP1. YAP1 you would see red spots.

	{{jcowan4}}		{{jcowan4}}

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 ===(Question 14, p. 121) Consider a microarray experiment where cells that overexpress the transcription factor Yap1p were subjected to the same experiment of a timecourse of glucose depletion where cells at t0 (plenty of glucose available) are labeled green and cells at later timepoints (glucose depleted) are labeled red. What color would you expect the spots that represented Yap1p target genes to be in the later time points of this experiment?===
 ===(Question 16, p. 121) Using the microarray data, how could you verify that you had truly deleted TUP1 or overexpressed YAP1 in the experiments described in questions 8 and 9?===
 {{jcowan4}}

← Older revision		Revision as of 04:37, 10 October 2019
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	===(Question 13, p. 121) Consider a microarray experiment where cells deleted for the repressor TUP1 were subjected to the same experiment of a timecourse of glucose depletion where cells at t0 (plenty of glucose available) are labeled green and cells at later timepoints (glucose depleted) are labeled red. What color would you expect the spots that represented glucose-repressed genes to be in the later time points of this experiment?===		===(Question 13, p. 121) Consider a microarray experiment where cells deleted for the repressor TUP1 were subjected to the same experiment of a timecourse of glucose depletion where cells at t0 (plenty of glucose available) are labeled green and cells at later timepoints (glucose depleted) are labeled red. What color would you expect the spots that represented glucose-repressed genes to be in the later time points of this experiment?===
		+	TUP1 is a repressor and so less glucose causes more repressed genes to appear. Repressed genes are associated with red, so there would be red dots.

	===(Question 14, p. 121) Consider a microarray experiment where cells that overexpress the transcription factor Yap1p were subjected to the same experiment of a timecourse of glucose depletion where cells at t0 (plenty of glucose available) are labeled green and cells at later timepoints (glucose depleted) are labeled red. What color would you expect the spots that represented Yap1p target genes to be in the later time points of this experiment?===		===(Question 14, p. 121) Consider a microarray experiment where cells that overexpress the transcription factor Yap1p were subjected to the same experiment of a timecourse of glucose depletion where cells at t0 (plenty of glucose available) are labeled green and cells at later timepoints (glucose depleted) are labeled red. What color would you expect the spots that represented Yap1p target genes to be in the later time points of this experiment?===

← Older revision		Revision as of 04:30, 10 October 2019
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	===(Question 12, p. 120) What mechanism could the genome use to ensure genes for enzymes in a common pathway are induced or repressed simultaneously?===		===(Question 12, p. 120) What mechanism could the genome use to ensure genes for enzymes in a common pathway are induced or repressed simultaneously?===
		+	Guilt by association identifies similar genes and genes with similar expressions.

	===(Question 13, p. 121) Consider a microarray experiment where cells deleted for the repressor TUP1 were subjected to the same experiment of a timecourse of glucose depletion where cells at t0 (plenty of glucose available) are labeled green and cells at later timepoints (glucose depleted) are labeled red. What color would you expect the spots that represented glucose-repressed genes to be in the later time points of this experiment?===		===(Question 13, p. 121) Consider a microarray experiment where cells deleted for the repressor TUP1 were subjected to the same experiment of a timecourse of glucose depletion where cells at t0 (plenty of glucose available) are labeled green and cells at later timepoints (glucose depleted) are labeled red. What color would you expect the spots that represented glucose-repressed genes to be in the later time points of this experiment?===

← Older revision		Revision as of 04:26, 10 October 2019
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	===(Question, 11, p. 120) Why would TCA cycle genes be induced if the glucose supply is running out?===		===(Question, 11, p. 120) Why would TCA cycle genes be induced if the glucose supply is running out?===
		+	TCA genes would be induced because of a lack of glucose. As a result, TCA makes ATP without glucose and oxygen.

	===(Question 12, p. 120) What mechanism could the genome use to ensure genes for enzymes in a common pathway are induced or repressed simultaneously?===		===(Question 12, p. 120) What mechanism could the genome use to ensure genes for enzymes in a common pathway are induced or repressed simultaneously?===

← Older revision		Revision as of 01:40, 10 October 2019
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	===(Question 9, p. 118) Why would most spots be yellow at the first time point? I.e., what is the technical reason that spots show up as yellow - where does the yellow color come from? And, what would be the biological reason that the experiment resulted in most spots being yellow?===		===(Question 9, p. 118) Why would most spots be yellow at the first time point? I.e., what is the technical reason that spots show up as yellow - where does the yellow color come from? And, what would be the biological reason that the experiment resulted in most spots being yellow?===
		+
		+	The mixture of genes from both the red and green gene expressions.

	===(Question 10, p. 118) Go to the Saccharomyces Genome Database and search for the gene TEF4; you will see it is involved in translation. Look at the time point labeled OD 3.7 in Figure 4.12, and find the TEF4 spot. Over the course of this experiment, was TEF4 induced or repressed? Hypothesize why TEF4’s change in expression was part of the cell’s response to a reduction in available glucose (i.e., the only available food).===		===(Question 10, p. 118) Go to the Saccharomyces Genome Database and search for the gene TEF4; you will see it is involved in translation. Look at the time point labeled OD 3.7 in Figure 4.12, and find the TEF4 spot. Over the course of this experiment, was TEF4 induced or repressed? Hypothesize why TEF4’s change in expression was part of the cell’s response to a reduction in available glucose (i.e., the only available food).===

← Older revision		Revision as of 01:30, 10 October 2019
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	===(Question 7, p. 110) Were any of the genes in Figure 4.7b transcribed similarly? If so, which ones were transcribed similarly to which ones?===		===(Question 7, p. 110) Were any of the genes in Figure 4.7b transcribed similarly? If so, which ones were transcribed similarly to which ones?===
		+
		+	Gene X and Y are very similar in their transcriptional response.

	===(Question 9, p. 118) Why would most spots be yellow at the first time point? I.e., what is the technical reason that spots show up as yellow - where does the yellow color come from? And, what would be the biological reason that the experiment resulted in most spots being yellow?===		===(Question 9, p. 118) Why would most spots be yellow at the first time point? I.e., what is the technical reason that spots show up as yellow - where does the yellow color come from? And, what would be the biological reason that the experiment resulted in most spots being yellow?===