Kwrigh35 Week 11

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Electronic Notebook

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:

  1. Use a keyword search for the first three databases/tools and answer the following:
    1. PubMed
      • What original keyword(s) did you use? How many results did you get?
      • My search was Microarray AND cold shock AND yeast and it returned 6 results.
      • Which terms in which combinations were most useful to narrow down the search? How many results did you get after narrowing the search?
      • By adding a space in microarray to make it micro array the search resulted in one article.
    2. Google Scholar
      • What original keyword(s) did you use? How many results did you get?
      • My search was Microarray AND cold shock AND yeast and it returned about 31,700 results
      • Which terms in which combinations were most useful to narrow down the search? How many results did you get after narrowing the search?
      • I changed my search to "microarray" "cold shock" "yeast" "genome wide" "expression analysis" which resulted in 874 results.
    3. Web of Science
      • What original keyword(s) did you use? How many results did you get?
      • My search was Microarray AND cold shock AND yeast and it returned 10 results.
      • Which terms in which combinations were most useful to narrow down the search? How many results did you get after narrowing the search?
      • I added the term AND genome wide to my search, which narrowed the results down to 4 papers.
  2. Use the advanced search functions for each of these three databases/tools and answer the following:
    1. PubMed
      • Which advanced search functions were most useful to narrow down the search? How many results did you get?
      • My original search yielded only 6 results, so I thought that narrowing the search would not help me in this instance. If there were more results, I would try narrowing the search in the following ways:
        • Searching for the above keywords, but only in the "title" field
        • Searching for more recent articles by using the "date completed" field
        • Searching for articles from a particular journal, such as Nature or Journal of Molecular Biology
    2. Google Scholar
      • Which advanced search functions were most useful to narrow down the search? How many results did you get?
      • Narrowing the search to just the title (but using the same keywords) gave zero results. Searching for microarray yeast in just the title yielded 150 results. Restricting that search to just the years 2007-2017 yielded 53 results.
    3. Web of Science
      • Which advanced search functions were most useful to narrow down the search? How many results did you get?
      • My original search yielded only 10 results, so I thought that narrowing the search would not help me in this instance. If there were more results, I would try narrowing the search in the following ways:
        • Searching for the original keywords, but only in the "title" field
        • Searching for more recent articles by changing the data range to the last 10 years (or less)
        • Searching for articles from a particular journal, such as Nature or Journal of Molecular Biology
    4. 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? 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

Annotated Bibliography

Paper 1

Becerra, M., Lombardia, L. J., González‐Siso, M. I., Rodríguez‐Belmonte, E., Hauser, N. C., & Cerdán, M. E. (2003). Genome‐wide analysis of the yeast transcriptome upon heat and cold shock. Comparative and functional genomics, 4(4), 366-375.

PubMed Abstract: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2447359/

PubMed Central: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2447359/pdf/CFG-04-366.pdf

Publisher Full Text (HTML): unavailable

Publisher Full Text (PDF): http://downloads.hindawi.com/journals/ijg/2003/175356.pdf

Copyright: Copyright © 2003 Hindawi Publishing Corporation. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Publisher: Hindawi Publishing Corporation

Availability: Open access

Did LMU pay a fee for this article: no

Paper 2

Sahara, T., Goda, T., & Ohgiya, S. (2002). Comprehensive expression analysis of time-dependent genetic responses in yeast cells to low temperature. Journal of Biological Chemistry, 277(51), 50015-50021.

PubMed Abstract: https://www.ncbi.nlm.nih.gov/pubmed/?term=Comprehensive+expression+analysis+of+time-dependent+genetic+responses+in+yeast+cells+to+low+temperature

PubMed Central: not available

Publisher Full Text (HTML): http://www.jbc.org/content/277/51/50015.long

Publisher Full Text (PDF): http://www.jbc.org/content/277/51/50015.full.pdf

Copyright: "Other parties are welcome to copy, distribute, transmit and adapt the work — at no cost and without permission — for noncommercial use as long as they attribute the work to the original source using the citation above." from http://www.jbc.org/site/misc/Copyright_Permission.xhtml

Publisher: American Society for Biochemistry and Molecular Biology

Availability: All articles from this journal are free 1 year after publishing.

Did LMU pay a fee for this article: No.

Acknowledgements

  • I'd like to thank my team member Emma Tyrnauer for working with me on this assignment. We communicated during class and via text.
  • I'd like to thank all of my team members, Emma, Blair Hamitlon, and Zach Van Ysseldyke for working with me on our group assignment page.

While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.

Kwrigh35 (talk) 01:51, 14 November 2017 (PST)

References

LMU BioDB 2017. (2017). Week 11. Retrieved November 9, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_11

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