Ntesfaio Week 8 - Revision history

Ntesfaio: /* Electronic Workbook */ edited correct stem file page

2019-10-24T23:19:31Z

‎Electronic Workbook: edited correct stem file page

2019-10-24T23:18:22Z

‎Data & Files: aded corrected profile sheet

2019-10-24T04:17:05Z

‎Methods/ Results: added spacing

2019-10-24T04:15:44Z

‎Conclusion: added to conclusion

2019-10-24T04:13:08Z

‎References: added wiki signature

2019-10-24T04:11:34Z

‎Acknowledgments: added an acknowledgement

2019-10-24T04:10:06Z

‎Electronic Workbook: added instructions

2019-10-24T04:02:31Z

‎Methods/ Results: added to NSR1

2019-10-24T04:01:14Z

‎Methods/ Results: added to questions

2019-10-23T19:02:37Z

‎References: added spreadsheet

@@ Line 228: / Line 228: @@
 [[Media:BIOL367 F19 sample p-value slideNtesfaio.pptx| Powerpoint Slide]]
-[[File:NtesfaioStem profiles pic corrected.jpg|500px|left]]
+[[Media:NtesfaioStem profiles pic corrected.jpg|Stem Profile]]
 ===Conclusion===

@@ Line 228: / Line 228: @@
 [[Media:BIOL367 F19 sample p-value slideNtesfaio.pptx| Powerpoint Slide]]
-[[Media:NtesfaioSTEM profiling.pdf| Stem Profile]]
+[[File:NtesfaioStem profiles pic corrected.jpg|500px|left]]
 ===Conclusion===

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 Background
 This is a list of steps required to analyze DNA microarray data.
@@ Line 218: / Line 219: @@
 In section 4 (Execute) click on the yellow Execute button to run STEM.
 If you get an error, there are some known reasons why stem might not work. If you had #DIV/0! errors in your input file, it will cause problems. Re-open your file and open the Find/Replace dialog. Search for #DIV/0!, but don't put anything in the replace field. Click "Replace all" to remove the #DIV/0! errors. Then save your file and try again with stem.
 ===Data & Files===

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 ===Conclusion===
-The purpose of this week's assignment was to go through a DNA microarray dataset and work with filtering p-values that are above or below a specific number. This lab also incorporated STEM which stands for Short Time-series Expression Miner. A Java program used for clustering, comparing, and visualizing short time series gene expression data from microarray experiements.
+The purpose of this week's assignment was to go through a DNA microarray dataset and work with filtering p-values that are above or below a specific number. This lab also incorporated STEM which stands for Short Time-series Expression Miner. A Java program used for clustering, comparing, and visualizing short time series gene expression data from microarray experiements. Using excel I was able to filter the datapoints based on p values and compare the percentage of datapoints left each time.
 ===Acknowledgments===

← Older revision		Revision as of 04:13, 24 October 2019
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	Excel Spreadsheet. Retrieved on October 23, 2019 from [[Media:BIOL367 F19 microarray-data dHAP4NtesfaioNT.xlsx\| Excel Spreadsheet]]		Excel Spreadsheet. Retrieved on October 23, 2019 from [[Media:BIOL367 F19 microarray-data dHAP4NtesfaioNT.xlsx\| Excel Spreadsheet]]
		+
		+	[[User:Ntesfaio\|Ntesfaio]] ([[User talk:Ntesfaio\|talk]]) 21:13, 23 October 2019 (PDT)

	{{Template:Ntesfaio}}		{{Template:Ntesfaio}}

← Older revision		Revision as of 04:11, 24 October 2019
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	My homework partners this week are Aby [[User:Ymesfin]] and David [[User:Dramir36]]. We sat together in class to go over the assignment.		My homework partners this week are Aby [[User:Ymesfin]] and David [[User:Dramir36]]. We sat together in class to go over the assignment.
		+
		+	Purpose and methods were copied over from [[Week 8]]

	===References===		===References===

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 Does NSR1 change expression due to cold shock in this experiment?
-Only at higher time points
+Only at higher time points. The average log began to be negative starting at T90.
 My favorite gene was RAD53 or YPL153C

← Older revision		Revision as of 04:01, 24 October 2019
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	Does NSR1 change expression due to cold shock in this experiment?		Does NSR1 change expression due to cold shock in this experiment?
		+
		+	Only at higher time points

	My favorite gene was RAD53 or YPL153C		My favorite gene was RAD53 or YPL153C

← Older revision		Revision as of 19:02, 23 October 2019
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	STEM.Short Time-series Expression Miner. Retrieved on October 23, 2019 from http://www.cs.cmu.edu/~jernst/stem/		STEM.Short Time-series Expression Miner. Retrieved on October 23, 2019 from http://www.cs.cmu.edu/~jernst/stem/

		+	LMU BioDB 2019. (2019). Week 8. Retrieved October 23, 2019, from https://xmlpipedb.cs.lmu.edu/biodb/fall2019/index.php/Week_8
		+
		+	Excel Spreadsheet. Retrieved on October 23, 2019 from [[Media:BIOL367 F19 microarray-data dHAP4NtesfaioNT.xlsx\| Excel Spreadsheet]]

	{{Template:Ntesfaio}}		{{Template:Ntesfaio}}