QLanners Week 12 - Revision history

Qlanners: added wiki signature for Qlanners (a little after deadline but whoops)

2017-11-21T05:53:03Z

added wiki signature for Qlanners (a little after deadline but whoops)

Qlanners: added ppt for journal club presentation

2017-11-21T05:24:15Z

added ppt for journal club presentation

Qlanners: added acknowledgements

2017-11-20T23:00:20Z

added acknowledgements

Qlanners: added italic to references

2017-11-20T20:54:59Z

added italic to references

Qlanners: added reference

2017-11-20T20:45:33Z

added reference

Qlanners: added new flowchart

2017-11-20T20:14:51Z

added new flowchart

Qlanners: got rid of old flowchart

2017-11-20T20:14:02Z

got rid of old flowchart

Qlanners: italicized species name

2017-11-20T07:25:26Z

italicized species name

Qlanners: added more references

2017-11-20T05:58:35Z

added more references

Qlanners: added links and acknowledgement sections

2017-11-20T05:53:38Z

added links and acknowledgement sections

@@ Line 94: / Line 94: @@
 #I checked base with my teammates [[User:Simonwro120|Simon]] and [[User:Ebachour|Eddie]] in class on Thursday to make sure our team page was filled out correctly, and also that they knew were to enter their information each week on the page. I also texted Eddie to work on making the fixes to our team page.
 #[[User:Kdahlquist|Dr. Dahlquist]] for answering the plethora of questions I had regarding the format of the journal club presentation. <br>
 ==References==

← Older revision		Revision as of 05:24, 21 November 2017
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		+	==Deliverable==
		+	[[Media:Genome-wide_analysis_of_the_yeast_transcriptome_upon_heat_and_cold_shock._QL_AP.zip\|Antonio and Quinn Journal Club Presentation]]
		+
	==Definitions of 10 Terms==		==Definitions of 10 Terms==
	#anneal: two complementary nucleic acids aligning in an opposing orientation to allow the nucleotide bases of one strand to form hydrogen bonds with the nucleotide bases of the complementary strand (GenScript, n.d.)		#anneal: two complementary nucleic acids aligning in an opposing orientation to allow the nucleotide bases of one strand to form hydrogen bonds with the nucleotide bases of the complementary strand (GenScript, n.d.)

@@ Line 88: / Line 88: @@
 ==Acknowledgements==
+#I worked in class with my teammate [[User:Aporras1|Antonio]] to read and understand the findings of our assigned journal article. I also met with Antonio outside of class on Monday, November 20 to finish up the presentation. Furthermore, we plan to meet the day of the presentation to run through it together to ensure that we give a quality presentation to the class. <br>
 ==References==

@@ Line 93: / Line 93: @@
 #Anneal. (n.d.). ''Genscript''. Retrieved on November 19, 2017 from https://www.genscript.com/molecular-biology-glossary/11896/anneal
 #Assay.(2005). ''Biology-Online''. Retrieved on November 19, 2017 http://www.biology-online.org/dictionary/Assay
-#Becerra, M., Lombardia, L.J., Gonzalez-Siso, M.I., Rodriguez-Belmonte, E., Hauser, N.C., & Cerdan, M.E. (2003). Genome-wide analysis of the yeast transcriptome upon heat and cold shock. Comparative and Functional Genomics, 4(4), 366-375. doi: 10.1002/cfg.301
+#Becerra, M., Lombardia, L.J., Gonzalez-Siso, M.I., Rodriguez-Belmonte, E., Hauser, N.C., & Cerdan, M.E. (2003). Genome-wide analysis of the yeast transcriptome upon heat and cold shock. ''Comparative and Functional Genomics'', 4(4), 366-375. doi: 10.1002/cfg.301
-#Causton HC, Ren B, Koh SS, et al. 2001. Remodelling of yeast genome expression in response to environmental changes. Mol Biol Cell 12: 323–337.
+#Causton HC, Ren B, Koh SS, et al. 2001. Remodelling of yeast genome expression in response to environmental changes. ''Mol Biol Cell'', 12: 323–337.
 #Cyclins. (n.d.). ''BioNinja''. Retrieved on November 19, 2017 from http://ib.bioninja.com.au/standard-level/topic-1-cell-biology/16-cell-division/cyclins.html
-#Donzeau M, Bourdineaud JP, Lauquin GJ. 1996. Regulation by low temperatures and anaerobiosis of a yeast gene specifying a putative GPI-anchored plasma membrane protein. Mol Microbiol 20: 449–459.
+#Donzeau M, Bourdineaud JP, Lauquin GJ. 1996. Regulation by low temperatures and anaerobiosis of a yeast gene specifying a putative GPI-anchored plasma membrane protein. ''Mol Microbiol'', 20: 449–459.
-#Gasch AP, Spellman PT, Kao CM, et al. 2000. Genomic expression programs in the response of yeast cells to environmental changes. Mol Biol Cell 11: 4241–4257.
+#Gasch AP, Spellman PT, Kao CM, et al. 2000. Genomic expression programs in the response of yeast cells to environmental changes. ''Mol Biol Cell'', 11: 4241–4257.
 #HAW. (2011). Difference Between Haploid and Diploid. ''Difference Between.com''. Retrieved on November 19, 2017 from http://www.differencebetween.com/difference-between-haploid-and-vs-diploid/
 #Hybridization. (2008). ''Biology-Online''. Retrieved on November 19, 2017 from http://www.biology-online.org/dictionary/Hybridization
-#Jung US, Levin DE. 1999. Genome-wide analysis of gene expression regulated by the yeast cell wall integrity-signalling pathway. Mol Microbiol 34: 1049–1057.
+#Jung US, Levin DE. 1999. Genome-wide analysis of gene expression regulated by the yeast cell wall integrity-signalling pathway. ''Mol Microbiol'', 34: 1049–1057.
-#Kondo K, Inouye M. 1991. Cold-induction of yeast NSR1 protein and its role in pre-rRNA processing. J Biol Chem 267: 16 259–16 265.
+#Kondo K, Inouye M. 1991. Cold-induction of yeast NSR1 protein and its role in pre-rRNA processing. ''J Biol Chem'', 267: 16 259–16 265.
-#Kowalski LR, Kondo K, Inouye M. 1995. Cold-shock induction of a family of TIP1-related proteins associated with the membrane in Saccharomyces cerevisiae. Mol Microbiol 15: 341 – 353.
+#Kowalski LR, Kondo K, Inouye M. 1995. Cold-shock induction of a family of TIP1-related proteins associated with the membrane in Saccharomyces cerevisiae. ''Mol Microbiol'', 15: 341 – 353.
-#Mai B, Breeden L. 1997. Xbp1, a stress-upregulated transcrip- tional repressor of the Saccharomyces cerevisae Swi4/Mbp1 family. Mol Cell Biol 17: 6491–6501.
+#Mai B, Breeden L. 1997. Xbp1, a stress-upregulated transcrip- tional repressor of the Saccharomyces cerevisae Swi4/Mbp1 family. ''Mol Cell Biol'', 17: 6491–6501.
 #Oligonucleotide. (2014). ''News Medical Life Sciences''. Retrieved on November 19, 2017 from https://www.news-medical.net/life-sciences/What-is-an-Oligonucleotide.aspx
 #Polypropylene. (n.d.). ''Dictionary.com''. Retrieved on November 19, 2017 from http://www.dictionary.com/browse/polypropylene
@@ Line 109: / Line 109: @@
 #Transcriptome. (n.d.). ''Nature''. Retrieved on November 19, 2017 from https://www.nature.com/scitable/definition/transcriptome-296
 #Young, F.W. (1999). Principle Components. ''forrest.psych.unc.edu''. Retrieved on November 19, 2017 from http://forrest.psych.unc.edu/research/vista-frames/help/lecturenotes/lecture13/biplot.html
-#Zhang L, Ohta A, Horiuchi H, Takagi M, Imai R. 2001. Multiple mechanisms regulate expression of low temperature responsive (LOT) genes in Saccharomyces cerevisiae. Biochem Biophys Res Commun 283: 531 – 535.
+#Zhang L, Ohta A, Horiuchi H, Takagi M, Imai R. 2001. Multiple mechanisms regulate expression of low temperature responsive (LOT) genes in ''Saccharomyces cerevisiae. Biochem Biophys Res Commun'', 283: 531 – 535.
 ==Links==
 {{Template:QLannersLinks}}

@@ Line 100: / Line 100: @@
 #HAW. (2011). Difference Between Haploid and Diploid. ''Difference Between.com''. Retrieved on November 19, 2017 from http://www.differencebetween.com/difference-between-haploid-and-vs-diploid/
 #Hybridization. (2008). ''Biology-Online''. Retrieved on November 19, 2017 from http://www.biology-online.org/dictionary/Hybridization
 #Kondo K, Inouye M. 1991. Cold-induction of yeast NSR1 protein and its role in pre-rRNA processing. J Biol Chem 267: 16 259–16 265.
 #Kowalski LR, Kondo K, Inouye M. 1995. Cold-shock induction of a family of TIP1-related proteins associated with the membrane in Saccharomyces cerevisiae. Mol Microbiol 15: 341 – 353.

@@ Line 55: / Line 55: @@
 ===Flowchart===
+[[File:QLanners Journal Flowchart.png|thumb|center|1000px|Flowchart of Experimental Methods outlined in journal article]]
 ===Results===

@@ Line 15: / Line 15: @@
 ===Background Information===
-*Saccharomyces cerevisiae used as model organism for research
+*''Saccharomyces cerevisiae'' used as model organism for research
 *Haploid Strain FY73 used in study
 *Studies have been done at growth temperature of 37◦ C and 39◦ C.

@@ Line 86: / Line 86: @@
 **Or could just be due to the strategies chosen for statistical analysis
 *The majority of genes upregulated in cold shock were also upregulated in heat shock, suggesting the genes in this cluster for general stress response (not specifically cold shock).
 ==References==
@@ Line 98: / Line 101: @@
 #Transcriptome. (n.d.). ''Nature''. Retrieved on November 19, 2017 from https://www.nature.com/scitable/definition/transcriptome-296
 #Young, F.W. (1999). Principle Components. ''forrest.psych.unc.edu''. Retrieved on November 19, 2017 from http://forrest.psych.unc.edu/research/vista-frames/help/lecturenotes/lecture13/biplot.html