Skinny Genes

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BIOL Databases Main Page	Skinny Genes Project	Skinny Genes Template Page	Skinny Genes Deliverables	Members	Project Manager & Data Analysis: Yeabsira Mesfin	Quality Assurance: Jonar Cowan & Christina Dominguez	Data Analysis: David Ramirez	Coder: Mihir Samdarshi
				Assignment Pages	Week 11	Week 12/13	Week 15

Positions

Project Manager: Aby

Quality Assurance: Jonar & Christina

Data Analysis: Aby & David

Coder: Mihir

Files

Journal Club Presentation

Skinny Genes Edited Raw Data

Annotated Bibliography

1. Aby: Hess, D. C., Lu, W., Rabinowitz, J. D., & Botstein, D. (2006). Ammonium toxicity and potassium limitation in yeast. PLoS biology, 4(11), e351. DOI: 10.1371/journal.pbio.0040351
2. Aby: Navarrete, C., Petrezsélyová, S., Barreto, L., Martínez, J. L., Zahrádka, J., Ariño, J., ... & Ramos, J. (2010). Lack of main K+ uptake systems in Saccharomyces cerevisiae cells affects yeast performance in both potassium-sufficient and potassium-limiting conditions. FEMS yeast research, 10(5), 508-517. DOI: DOI:10.1111/j.1567-1364.2010.00630.x
3. Christina: Anemaet, I. G., & van Heusden, G. P. H. (2014). Transcriptional response of Saccharomyces cerevisiae to potassium starvation. BMC genomics, 15(1), 1040. doi:10.1186/1471-2164-15-1040
4. Christina: Martínez, J. L., Luna, C., & Ramos, J. (2012). Proteomic changes in response to potassium starvation in the extremophilic yeast Debaryomyces hansenii. FEMS yeast research, 12(6), 651-661. doi: 10.1111/j.1567-1364.2012.00815.x
5. Mihir: Canadell, D., González, A., Casado, C., & Ariño, J. (2015). Functional interactions between potassium and phosphate homeostasis in Saccharomyces cerevisiae. Molecular microbiology, 95(3), 555-572. DOI: 10.1111/mmi.12886
6. Mihir: Kahm, M., Navarrete, C., Llopis-Torregrosa, V., Herrera, R., Barreto, L., Yenush, L., … Kschischo, M. (2012). Potassium Starvation in Yeast: Mechanisms of Homeostasis Revealed by Mathematical Modeling. PLoS Computational Biology, 8(6). doi: 10.1371/journal.pcbi.1002548
7. David: Gladfelter, A.S., Kozubowski, L., Zyla, T.R., and Lew, D.J. (2005) Interplay between septin organization, cell cycle and cell shape in yeast. J Cell Sci 118: 1617–1628. DOI: 10.1242/jcs.02286
8. David: Howell, A.S., and Lew, D.J. (2012) Morphogenesis and the cell cycle. Genetics 190: 51–77. DOI: 10.1534/genetics.111.128314
9. Jonar: Hess, D. C., Lu, W., Rabinowitz, J. D., & Botstein, D. (2006). Ammonium toxicity and potassium limitation in yeast. PLoS biology, 4(11), e351.
10. Jonar: Udensi, U. K., & Tchounwou, P. B. (2017). Potassium Homeostasis, Oxidative Stress, and Human Disease. International journal of clinical and experimental physiology, 4(3), 111–122. doi:10.4103/ijcep.ijcep_43_17

Executive Summaries

Aby's Reflection

• Progress: This week we created an outline for our presentation and formatted the presentation for the journal club.
  1. What worked? Responsibilities for the presentation was delegated well so that everyone contributed an equal share.
  2. What didn't work? It was difficult to work around everyone's schedules so that we could meet up and work together.
  3. What will I do next to fix what didn't work? We will need to communicate with one another better and anticipate the amount of time necessary to complete the assignment as a group so that our schedules don't interfere with the groupwork.

Jonar's Reflection

• Progress:
  1. What worked? Everybody in the group was responsive and we were able to agree on and start our presentation early. The delegation of work and support worked well.
  2. What didn't work? Due to time constraints with multiple people, finding time for all five members was a little difficult
  3. What will I do next to fix what didn't work? We can plan an early meeting time or we can delegate tasks and plan a little meeting just to go over the work.

Jcowan4 (talk) 23:59, 13 November 2019 (PST)

Christina's Reflection

• Progress:
  1. What worked? We started early which allowed us to have the time to work through our presentation in a timely manner.
  2. What didn't work? It is difficult to find a meeting time for 5 people in order to work on the presentation.
  3. What will I do next to fix what didn't work? Try to find a time on the weekend to meet instead of on school days.

Mihir's Reflection

• Progress:
  1. What worked?
     • We were able to communicate well, and we all worked together to help each other understand and excel in our tasks. Furthermore, we figured out methods of communication and how to best work with each other remotely.
  2. What didn't work?
     • Scheduling times to work on this assignment was pretty hectic this week, given that each member of our team had an unusual number of projects, midterms, homework, and extra-curricular activities this week. We could not all meet together outside of class.
  3. What will I do next to fix what didn't work?
     • Hopefully, this was a one-time occurrence and none of us will be as busy as we were this week. However, other than that, we could also improve our responsiveness in our team's group message, as that is our sole method of communication outside of class.

Msamdars (talk) 20:16, 13 November 2019 (PST)

David's Reflection

• Progress:
  1. What worked? We were able to communicate and agree to meet twice outside of class, which was the most we could do during our busy schedules. We were also able to create a GroupMe group chat so that everyone has a chance to communicate with each other and ask questions when needed.
  2. What didn't work? Creating times where we could all meet up in the computer lab was very difficult because all of us had different schedules, so when we actually did make a time to meet, we made sure to use the time together as effective as possible. I wish I didn't have so much work from other classes that coincidentally built up especially in this week.
  3. What will I do next to fix what didn't work? I will try to better manage my time and spending time on assignments from other classes evenly so that when it comes to working on this project with the group, I can fully focus on what I have to do instead of stressing about another project from another class.

Dramir36 (talk) 23:37, 13 November 2019 (PST)