Difference between revisions of "Emmatyrnauer Week 11"

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==Electronic Notebook==
 
==Electronic Notebook==
  
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Example:
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===Example Annotated Bibliography===
 
Schade, B., Jansen, G., Whiteway, M., Entian, K.D., & Thomas, D.Y. (2004). Cold Adaptation in Budding Yeast.  ''Molecular Biology of the Cell'', 15, 5492-5502.  doi:  10.1091/mbc.E04-03-0167
 
Schade, B., Jansen, G., Whiteway, M., Entian, K.D., & Thomas, D.Y. (2004). Cold Adaptation in Budding Yeast.  ''Molecular Biology of the Cell'', 15, 5492-5502.  doi:  10.1091/mbc.E04-03-0167
 
* PubMed Abstract:  http://www.ncbi.nlm.nih.gov/pubmed/15483057
 
* PubMed Abstract:  http://www.ncbi.nlm.nih.gov/pubmed/15483057
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* Did LMU pay a fee for this article: no
 
* Did LMU pay a fee for this article: no
  
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Paper 1:
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===Annotated Bibliography===
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Homma, T., Iwahashi, H., & Komatsu, Y. (2003). Yeast gene expression during growth at low temperature. Cryobiology, 46(3), 230-237.  
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====Paper 1====
 +
Homma, T., Iwahashi, H., & Komatsu, Y. (2003). Yeast gene expression during growth at low temperature. ''Cryobiology'', 46(3), 230-237.  
 
* PubMed Abstract:  https://www.ncbi.nlm.nih.gov/pubmed/12818212
 
* PubMed Abstract:  https://www.ncbi.nlm.nih.gov/pubmed/12818212
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* PubMed Central:   
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* PubMed Central:  not available
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* Publisher Full Text (HTML):   
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* Publisher Full Text (HTML):  http://sq4ya5rf2q.search.serialssolutions.com/?V=1.0&sid=PubMed:LinkOut&pmid=12818212
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* Publisher Full Text (PDF):
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* Publisher Full Text (PDF): https://electra.lmu.edu:3555/S0011224003000282/1-s2.0-S0011224003000282-main.pdf?_tid=4c9b7cc0-c775-11e7-af71-00000aab0f26&acdnat=1510469407_3e02bee4266fd6a211ea3f6e27b460cf
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* Copyright:  
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* Copyright: 2003 by Science Direct; article is not Open Access
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* Publisher:   
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* Publisher:  Elsevier Science
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* Availability:  
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* Availability: online at www.sciencedirect.com
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* Did LMU pay a fee for this article:  
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* Did LMU pay a fee for this article: yes
  
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Paper 2:
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====Paper 2====
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Lashkari, D. A., DeRisi, J. L., McCusker, J. H., Namath, A. F., Gentile, C., Hwang, S. Y., ... & Davis, R. W. (1997). Yeast microarrays for genome wide parallel genetic and gene expression analysis. Proceedings of the National Academy of Sciences, 94(24), 13057-13062.
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Murata, Y., Homma, T., Kitagawa, E., Momose, Y., Sato, M. S., Odani, M., ... & Fujita, K. (2006). Genome-wide expression analysis of yeast response during exposure to 4 C. ''Extremophiles'', 10(2), 117-128.
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* PubMed Abstract:  https://www.ncbi.nlm.nih.gov/pubmed/9371799
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* PubMed Abstract:  https://www.ncbi.nlm.nih.gov/pubmed/?term=Genome-wide+expression+analysis+of+yeast+response+during+exposure+to+4+degrees+C
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* PubMed Central: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC24262/
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* PubMed Central: not available
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* Publisher Full Text (HTML): http://www.pnas.org/content/94/24/13057.long
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* Publisher Full Text (HTML): https://electra.lmu.edu:2529/article/10.1007/s00792-005-0480-1
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* Publisher Full Text (PDF):  http://www.pnas.org/content/94/24/13057.full.pdf
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* Publisher Full Text (PDF):  http://sq4ya5rf2q.search.serialssolutions.com/?V=1.0&sid=PubMed:LinkOut&pmid=16254683
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* Copyright:  
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* Copyright: 2005 by Springer-Verlag; article is not Open Access
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* Publisher:   
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* Publisher:  Springer-Verlag
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* Availability:  
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* Availability: online
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* Did LMU pay a fee for this article:  
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* Did LMU pay a fee for this article: yes
  
 +
'''''Complete annotated bibliography can be found on the Lights, Camera, InterACTION! [[Lights, Camera, InterACTION!| homepage]]'''.''
  
 +
===Keyword Searches===
 +
'''''Note: Answers are bolded'''''<br>
 +
Use a keyword search for the first three databases/tools and answer the following: 
 +
#PubMed
 +
#*What original keyword(s) did you use?  '''"yeast cold shock"'''
 +
#*How many results did you get? '''108'''
 +
#*Which terms in which combinations were most useful to narrow down the search?  '''"yeast cold shock microarray data"'''
 +
#*How many results did you get after narrowing the search? '''4'''
 +
#Google Scholar
 +
#*What original keyword(s) did you use?  '''"yeast response to cold shock"'''
 +
#*How many results did you get? '''204,000'''
 +
#*Which terms in which combinations were most useful to narrow down the search?  '''"microarray data from yeast subjected to cold shock."'''
 +
#*How many results did you get after narrowing the search? '''21,500'''
 +
#Web of Science
 +
#*What original keyword(s) did you use?  '''"yeast, cold shock"'''
 +
#*How many results did you get? '''218'''
 +
#*Which terms in which combinations were most useful to narrow down the search?  '''"microarray data, yeast, cold shock"'''
 +
#*How many results did you get after narrowing the search? '''4'''
  
−
You must use these three databases/tools to find the references that you include in your bibliography:  PubMed, GoogleScholar, and Web of Science. Answer the following questions as part of your assignment:
 
−
* Use a keyword search for the first three databases/tools and answer the following: 
 
−
** PubMed
 
−
*** What original keyword(s) did you use?  How many results did you get?
 
−
*** Which terms in which combinations were most useful to narrow down the search?  How many results did you get after narrowing the search?
 
−
** Google Scholar
 
−
*** What original keyword(s) did you use?  How many results did you get?
 
−
*** Which terms in which combinations were most useful to narrow down the search?  How many results did you get after narrowing the search?
 
−
** Web of Science
 
−
*** What original keyword(s) did you use?  How many results did you get?
 
−
*** Which terms in which combinations were most useful to narrow down the search?  How many results did you get after narrowing the search?
 
−
* Use the advanced search functions for each of these three databases/tools and answer the following: 
 
−
** PubMed
 
−
*** Which advanced search functions were most useful to narrow down the search?  How many results did you get?
 
−
** Google Scholar
 
−
*** Which advanced search functions were most useful to narrow down the search?  How many results did you get?
 
−
** Web of Science
 
−
*** Which advanced search functions were most useful to narrow down the search?  How many results did you get?
 
−
** Perform a prospective search on the following three review articles in Web of Science and answer the following:
 
−
*** Aguilera, J., Randez-Gil, F., & Prieto, J.A. (2007).  Cold Response in Saccharomyces cerevisiae:  New Functions for Old Mechanisms.  FEMS Microbiological Reviews,  31, 327–341.  doi: 10.1111/j.1574-6976.2007.00066.x
 
−
**** How many articles does this article cite?
 
−
**** How many articles cite this article?
 
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*** Al-Fageeh, M.B. & Smales, C.M. (2006).  Control and Regulation of the Cellular Responses to Cold Shock:  the Responses in Yeast and Mammalian Systems.  Biochemical Journal, 397, 247–259.  doi:  10.1042/BJ20060166
 
−
**** How many articles does this article cite?
 
−
**** How many articles cite this article?
 
−
*** Thieringer, H.A., Jones, P.G.,& Inouye, M. (1998).  Cold shock and adaptation.  BioEssays, 20, 49–57.  doi: 10.1002/(SICI)1521-1878(199801)20:1<49::AID-BIES8>3.0.CO;2-N
 
−
**** How many articles does this article cite?
 
−
**** How many articles cite this article?
 
  
 +
Use the advanced search functions for each of these three databases/tools and answer the following: 
 +
[[File:Google_scholar_advanced_search_function_screenshot.png|500px|thumb|right| Image 1: Advanced search function window for Google Scholar]]
 +
[[File:Webofscience_advanced_search.png|500px|thumb|right|Image 2: Advanced search function window for Web of Science]]
 +
#PubMed
 +
#*Which advanced search functions were most useful to narrow down the search?  '''the title function'''
 +
#*How many results did you get? '''22'''
 +
#Google Scholar
 +
#*Which advanced search functions were most useful to narrow down the search?  '''Functions represented in Image 1'''
 +
#*How many results did you get? '''4,820'''
 +
#Web of Science
 +
#*Which advanced search functions were most useful to narrow down the search?  '''Functions represented in Image 2'''
 +
#*How many results did you get? '''10'''
  
 +
===Prospective search results from Web of Science===
 +
'''''Note: Answers are bolded'''''<br>
 +
Aguilera, J., Randez-Gil, F., & Prieto, J.A. (2007).  Cold Response in Saccharomyces cerevisiae:  New Functions for Old Mechanisms.  FEMS Microbiological Reviews,  31, 327–341.  doi: 10.1111/j.1574-6976.2007.00066.x
 +
*How many articles does this article cite? '''144'''
 +
*How many articles cite this article? '''77'''
 +
Al-Fageeh, M.B. & Smales, C.M. (2006).  Control and Regulation of the Cellular Responses to Cold Shock:  the Responses in Yeast and Mammalian Systems.  Biochemical Journal, 397, 247–259.  doi:  10.1042/BJ20060166
 +
*How many articles does this article cite? '''125'''
 +
*How many articles cite this article? '''108'''
 +
Thieringer, H.A., Jones, P.G.,& Inouye, M. (1998).  Cold shock and adaptation.  BioEssays, 20, 49–57.  doi: 10.1002/(SICI)1521-1878(199801)20:1<49::AID-BIES8>3.0.CO;2-N
 +
*How many articles does this article cite? '''76'''
 +
*How many articles cite this article? '''258'''
  
 +
==Acknowledgements==
 +
#I worked with my group project partner [[User:Kwrigh35|Katie]] during class and over text to write the annotated bibliography.
 +
#I worked with Katie, [[User: Zvanysse | Zach]], and [[User:Bhamilton18 | Blair]], to construct the our group page.
 +
#[[User:Kdahlquist|Dr. Dahlquist]] for explaining the process of creating annotated bibliographies
 +
#[https://scholar.google.com/| Google Scholar] for research
 +
#[http://electra.lmu.edu:2179/WOS_GeneralSearch_input.do?product=WOS&search_mode=GeneralSearch&SID=4E3Uh6AVRsXU6VXtMbd&preferencesSaved=| Web of Science] for research
 +
#[https://www.ncbi.nlm.nih.gov/pubmed/| Pub Med] for research
 +
While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.
 +
[[User:Emmatyrnauer|Emmatyrnauer]] ([[User talk:Emmatyrnauer|talk]]) 00:18, 12 November 2017 (PST)
  
 +
==References==
 +
LMU BioDB 2017. (2017). Week 1. Retrieved August 29, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_11
  
−
http://www.sciencedirect.com/science/article/pii/S0011224003000282?via%3Dihub
 
−
http://www.pnas.org/content/94/24/13057.full
 
−
 
−
==Acknowledgements==
 
−
==References==
 
 
{{Emmatyrnauer}}
 
{{Emmatyrnauer}}

Latest revision as of 07:07, 14 November 2017

Electronic Notebook

Example Annotated Bibliography

Schade, B., Jansen, G., Whiteway, M., Entian, K.D., & Thomas, D.Y. (2004). Cold Adaptation in Budding Yeast. Molecular Biology of the Cell, 15, 5492-5502. doi: 10.1091/mbc.E04-03-0167

Annotated Bibliography

Paper 1

Homma, T., Iwahashi, H., & Komatsu, Y. (2003). Yeast gene expression during growth at low temperature. Cryobiology, 46(3), 230-237.

Paper 2

Murata, Y., Homma, T., Kitagawa, E., Momose, Y., Sato, M. S., Odani, M., ... & Fujita, K. (2006). Genome-wide expression analysis of yeast response during exposure to 4 C. Extremophiles, 10(2), 117-128.

Complete annotated bibliography can be found on the Lights, Camera, InterACTION! homepage.

Keyword Searches

Note: Answers are bolded
Use a keyword search for the first three databases/tools and answer the following:

  1. PubMed
    • What original keyword(s) did you use? "yeast cold shock"
    • How many results did you get? 108
    • Which terms in which combinations were most useful to narrow down the search? "yeast cold shock microarray data"
    • How many results did you get after narrowing the search? 4
  2. Google Scholar
    • What original keyword(s) did you use? "yeast response to cold shock"
    • How many results did you get? 204,000
    • Which terms in which combinations were most useful to narrow down the search? "microarray data from yeast subjected to cold shock."
    • How many results did you get after narrowing the search? 21,500
  3. Web of Science
    • What original keyword(s) did you use? "yeast, cold shock"
    • How many results did you get? 218
    • Which terms in which combinations were most useful to narrow down the search? "microarray data, yeast, cold shock"
    • How many results did you get after narrowing the search? 4


Use the advanced search functions for each of these three databases/tools and answer the following:

Image 1: Advanced search function window for Google Scholar
Image 2: Advanced search function window for Web of Science
  1. PubMed
    • Which advanced search functions were most useful to narrow down the search? the title function
    • How many results did you get? 22
  2. Google Scholar
    • Which advanced search functions were most useful to narrow down the search? Functions represented in Image 1
    • How many results did you get? 4,820
  3. Web of Science
    • Which advanced search functions were most useful to narrow down the search? Functions represented in Image 2
    • How many results did you get? 10

Prospective search results from Web of Science

Note: Answers are bolded
Aguilera, J., Randez-Gil, F., & Prieto, J.A. (2007). Cold Response in Saccharomyces cerevisiae: New Functions for Old Mechanisms. FEMS Microbiological Reviews, 31, 327–341. doi: 10.1111/j.1574-6976.2007.00066.x

  • How many articles does this article cite? 144
  • How many articles cite this article? 77

Al-Fageeh, M.B. & Smales, C.M. (2006). Control and Regulation of the Cellular Responses to Cold Shock: the Responses in Yeast and Mammalian Systems. Biochemical Journal, 397, 247–259. doi: 10.1042/BJ20060166

  • How many articles does this article cite? 125
  • How many articles cite this article? 108

Thieringer, H.A., Jones, P.G.,& Inouye, M. (1998). Cold shock and adaptation. BioEssays, 20, 49–57. doi: 10.1002/(SICI)1521-1878(199801)20:1<49::AID-BIES8>3.0.CO;2-N

  • How many articles does this article cite? 76
  • How many articles cite this article? 258

Acknowledgements

  1. I worked with my group project partner Katie during class and over text to write the annotated bibliography.
  2. I worked with Katie, Zach, and Blair, to construct the our group page.
  3. Dr. Dahlquist for explaining the process of creating annotated bibliographies
  4. Google Scholar for research
  5. Web of Science for research
  6. Pub Med for research

While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source. Emmatyrnauer (talk) 00:18, 12 November 2017 (PST)

References

LMU BioDB 2017. (2017). Week 1. Retrieved August 29, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_11

Links

  1. My User Page
  2. List of Assignments
  3. List of Journal Entries
  4. List of Shared Journal Entries
Retrieved from "https://xmlpipedb.lmucs.io/biodb/fall2017/index.php?title=Emmatyrnauer_Week_11&oldid=4496"