JASPAR the Friendly Ghost

Executive Summaries

Week 11

Quinn's Executive Summary

Created citations for two entries in the annotated bibliography for papers that report microarray data from yeast subjected to cold shock:

Dahlquist, K.D., Fitzpatrick, B.G., Camacho, E.T., Entzminger, S.D., & Wanner, N.C. (2015). Parameter Estimation for Gene Regulatory Networks from Microarray Data: Cold Shock Response in Saccharomyces cerevisiae. Bulletin of Mathematical Biology, 77(8), 1457–1492. doi: 10.1007/s11538-015-0092-6
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

Also completed a search activity to compare the results found from PubMed, GoogleScholar, and Web of Science using both basic and advanced search tools.
Individual Journal Page: QLanners Week 11

Antonio's Executive Summary

Created two citations for the bibliography:

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: No PubMed Central Article
• Publisher Full Text (HTML): http://www.jbc.org/content/277/51/50015.full
• Publisher Full Text (PDF): http://www.jbc.org/content/277/51/50015.full.pdf
• Copyright: 2002 by the Authors (found on PDF) and Copyright © 2017 American Society for Biochemistry and Molecular Biology
• Publisher: JBC Papers in Press, October 11, 2002, DOI 10.1074/jbc.M209258200
• Availability: In print and Online
• Did LMU pay a fee for this article: No
• Is the dataset available? Figures and tables have certain data but was unable to find a download for raw data.

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 Central: No PubMed Central Article
• Publisher Full Text (HTML): http://www.sciencedirect.com/science/article/pii/S0011224003000282#aep-section-id17
• Publisher Full Text (PDF): https://www.sciencedirect.com/science/article/pii/S0011224003000282/pdfft?md5=5827d4b1e460343cb3fbc58cd603e691&pid=1-s2.0-S0011224003000282-main.pdf
• Copyright: 2002 by Authors (found on PDF) and Copyright © 2003 Elsevier Science (USA). All rights reserved.
• Publisher: Cryobiology. 2003 Jun;46(3):230-7.
• Availability: In print and Online
• Did LMU pay a fee for this article: No
• Is the dataset available? Figures and tables have certain data but was unable to find a download for raw data.

I also completed the basic keyword searches on PubMed, Google Scholar, and Web of Science along with the advanced searches and the respective results. Lastly, I completed the prospective searches and collected the results of how many articles the article cites and how many articles cite the article. Totaling to the 3 articles.

References

1. LMU BioDB 2017. (2017). Week 11. Retrieved November 07, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_11

Links

Course Home Page
JASPAR the Friendly Ghost Team Page
JASPAR the Friendly Ghost Final GRNsight Deliverables Page
JASPAR Database
Team Member's Pages: Quinn Lanners Project Manager/QA | Antonio Porras Data Analyst | Eddie Bachoura Coder | Simon Wroblewski Coder
Instructors: Dr. Dondi | Dr. Dahlquist
Individual Journal Pages:

• Week 11: Quinn Lanners | Antonio Porras | Edward Bachoura | Simon Wroblewski
  
• Week 12: Quinn Lanners | Antonio Porras | Edward Bachoura | Simon Wroblewski
  
• Week 13: Thanksgiving Break
  
• Week 14: Quinn Lanners | Antonio Porras | Edward Bachoura | Simon Wroblewski
  
• Week 15: Quinn Lanners | Antonio Porras | Edward Bachoura | Simon Wroblewski