Lights, Camera, InterACTION!

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The article approved for next week's journal club is Murata et al. (2006). You can remove this notice once both Katie and Emma have read it. — Kdahlquist (talk) 22:57, 14 November 2017 (PST)

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Team Members

Executive Summaries

Week 11

Katie - PM/QA

For this week, I worked with Emma to find papers to use as reference in our final research paper. Emma and I both found papers that are related to yeast cold shock reactions and most of them use microarray data. I am excited to read these articles more in depth as we develop our research project and paper.

  1. What worked? Using the three different sources was really helpful because I had never used "Web of Science" before. It was good to learn about how different these results can be, especially with tweaking the search terms a little bit.
  2. What didn't work? I had poor time management this week. I waited until Monday to do the majority of the work and definitely should not have done so. The rest of the project went well, however.
  3. What will I do next to fix what didn't work? I will plan to meet up with Emma early on in the week so we can work together on our presentation. This way I will be held accountable to get my work done earlier.

Emma - Data Analysis

This week Katie and I worked on the annotated bibliography (below). We chose papers that provided more information on yeast gene regulation in response to cold shock. Pub Med, Google Scholar, and Web of Science were utilized to perform basic searches using key words as well as advanced searches which helped to narrow the results. More detailed information can be found on my individual journal entry page: Emmatyrnauer Week 11. Meanwhile, Blair and Zach worked on coder journal club presentation. Construction of the group page was completed during class.

  1. Overall, this week went pretty smoothly; Katie and I communicated over text to determine which papers we were going to write the bibliographies for and were available to each other for any questions we had.
  2. There wasn't really anything that didn't work.
  3. Since we will be working this next week on our journal club presentation, it might be beneficial to meet in person.

Emmatyrnauer (talk) 20:26, 13 November 2017 (PST)

Links

  1. My User Page
  2. List of Assignments
  3. List of Journal Entries
  4. List of Shared Journal Entries

Blair - Coder

  1. This week Zach and I created the Powerpoint presentation about The secret startup that saved the worst website in America article. We created individual outlines of the article on our respective pages, mine is as follows: Bhamilton18 Week 11. Our presentation is linked here: Zach and Blair's Powerpoint
  2. Overall, our communication and diving up of tasks went well and smoothly. Meanwhile, Katie and Emma worked on the annotate bibliography. While I primarily worked with Zach our communication amongst group members went well and we hope to continue to do so for the future.
  3. Something that didn't work as well was our time management. Next time we hope to have more class time and start working earlier on our portion of the assignment.
  4. For the future, we will continue to communicate in person and through messaging and will work on time management by starting earlier.

Bhamilton18 (talk) 23:35, 13 November 2017 (PST)

Category Links
User Page Blair Hamilton
Weekly Assignments Bhamilton18 Week 2   Bhamilton18 Week 3   Bhamilton18 Week 4  Animal QTL  Bhamilton18 Week 6  Bhamilton18 Week 7  Bhamilton18 Week 8  Bhamilton18 Week 9  Bhamilton18 Week 10  Bhamilton18 Week 11  Bhamilton18 Week 12  Bhamilton18 Week 14  Bhamilton18 Week 15
Weekly Assignment
Instructions		 Week 1   Week 2   Week 3   Week 4   Week 5   Week 6   Week 7   Week 8   Week 9   Week 10   Week 11   Week 12   Week 14   Week 15
Class Journals Class Journal Week 1   Class Journal Week 2   Class Journal Week 3   Class Journal Week 4   Class Journal Week 5   Class Journal Week 6   Class Journal Week 7   Class Journal Week 8   Class Journal Week 9   Class Journal Week 10
Final Project Lights, Camera, InterACTION!  Lights, Camera, InterACTION! Deliverables

Zach - Coder

Zach and Blair's Powerpoint

  • This week, Blair and I created a Powerpoint about the "Secret Startup that saved the worst website in America." We read through the article and picked out the relevant themes and main messages to put on the PowerPoint. We wrote these themes and summaries out on our individual Journals. Then, we collaborated and made our PowerPoint.
  • Things that went well: Blair and I's communication was very strong and we knew exactly what was going on with one another. We knew when we were going to meet up and what was expected for each of us.
  • Things that didn't go well: Blair and I missed the mark on our time management. We did not expect this assignment to take this long. Next time, we will make sure to start on assignments earlier.
  • Like I said above, we will plan out exact times earlier on in the week that we can meet up

Zvanysse (talk) 23:44, 13 November 2017 (PST)
Zvanysse

BIOL/CMSI 367-01: Biological Databases Fall 2017

Assignments

Week 1 | Week 2 | Week 3 | Week 4 | Week 5 | Week 6 | Week 7 | Week 8 | Week 9 | Week 10 | Week 11 | Week 12 | Week 14

Individual Assignments

Zvanysse Week 1 | Zvanysse Week 2 | Zvanysse Week 3 | Zvanysse Week 4 | Zvanysse Week 5 | Zvanysse Week 6 | Zvanysse Week 7 | Zvanysse Week 8 | Zvanysse Week 9 | Zvanysse Week 10 | Zvanysse Week 11 | Zvanysse Week 12 | Zvanysse Week 14 | Zvanysse Week 15

Shared Journals

Zvanysse Week 1 Journal | Zvanysse Week 2 Journal | Zvanysse Week 3 Journal | Zvanysse Week 4 Journal | Zvanysse Week 5 Journal | Zvanysse Week 6 Journal | Zvanysse Week 7 Journal | Zvanysse Week 8 Journal | Zvanysse Week 9 Journal | Zvanysse Week 10 Journal | Zvanysse Week 11 Journal | Zvanysse Week 12 Journal | Zvanysse Week 14 Journal


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.

Paper 3

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 4

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.


Navigational Links

Category Links
Interwiki Main Page   Course schedule   Lights, Camera, InterACTION!   LCI! Deliverables
Team Members Blair Hamilton   Emma Tyrnauer   Katie Wright   Zach Van Ysseldyk
GRNsight Gene Page
Project Instructions 		Main Instructions   Project Deliverables   Week 11   Week 12   Week 14   Week 15
Guilds Project Manager   Quality Assurance   Data Analysis   Coder
GitHub GRNsight Link https://github.com/bhamilton18/GRNsight
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