Difference between revisions of "Msamdars Week 12/13"
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*Used the [http://llama.mshri.on.ca/synergizer/translate/ Synergizer] website, which was not helpful at all and was not giving the right ids or names. | *Used the [http://llama.mshri.on.ca/synergizer/translate/ Synergizer] website, which was not helpful at all and was not giving the right ids or names. | ||
*Emailed Dr. Dahlquist for help. Received edited gene list. | *Emailed Dr. Dahlquist for help. Received edited gene list. | ||
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===Conclusion=== | ===Conclusion=== | ||
Revision as of 23:54, 25 November 2019
Contents
Electronic Lab Notebook
Purpose
This is the electronic notebook recording information regarding my progress towards the final project. I am a member of the designer/coder guild and will be designing the database.
Methods
- Decided with the help of the group will be using the Azure platform to host a centralized server on which we can all access the Microsoft Access Database.
- Furthermore, we decided on the format for the metadata sheet and the individual data sheets for each article.
- Sample To Data Table:
- Sample ID (PMID + index)[integer]
- Pubmed ID [integer]
- Control Yeast Strain [string]
- Control [String]
- Concentration Value [Integer]
- Concentration Unit [String]
- Time Value [Integer]
- Time Units [String]
- Number of Replicates [Integer]
- Citation Table:
- PMID [Integer]
- Authors [Array[strings]]
- Title [String]
- DOI [String]
- NCBI GEO ID [Integer]
- Sample To Data Table:
- Attempted to write program using downloaded gene list from Saccharomyces Gene Database. Wrote program using Pandas and NumPy libraries in a Python Jupyter Notebook. Gave up on realizing it was doomed.
- Used the Synergizer website, which was not helpful at all and was not giving the right ids or names.
- Emailed Dr. Dahlquist for help. Received edited gene list.
Conclusion
Acknowledgments
This week my team members are in Skinny Genes which is composed of Jonar Cowan, Aby Mesfin, David Ramirez, Christina Dominguez, & myself. We worked in and out of class together.
Except for what is noted above, this individual journal entry was completed by me and not copied from another source
Other Links
| Links | ||
|---|---|---|
| Mihir Samdarshi User Page | ||
| Assignment Pages | Personal Journal Entries | Shared Journal Entries |
| Week 1 | Journal Week 1 | Class Journal Week 1 |
| Week 2 | Journal Week 2 | Class Journal Week 2 |
| Week 3 | FAS2/YPL231W Week 3 | Class Journal Week 3 |
| Week 4 | Journal Week 4 | Class Journal Week 4 |
| Week 5 | Database - AmtDB | Class Journal Week 5 |
| Week 6 | Journal Week 6 | Class Journal Week 6 |
| Week 7 | Journal Week 7 | Class Journal Week 7 |
| Week 8 | Journal Week 8 | Class Journal Week 8 |
| Week 9 | Journal Week 9 | Class Journal Week 9 |
| Assignment Pages | Personal Journal Entries | |
| Week 10 | Journal Week 10 | |
| Week 11 | Journal Week 11 | |
| Week 12/13 | Journal Week 12/13 | |
| Team Project Links | ||
| Skinny Genes Team Page | ||
References
- LMU BioDB 2019. (2019). Week 12. Retrieved November 25, 2019, from https://xmlpipedb.cs.lmu.edu/biodb/fall2019/index.php/Week_12/13
- MediaWiki (2019). Category: Help. Retrieved November 25, 2019, from https://www.mediawiki.org/wiki/Category:Help
