Sulfiknights DA Week 12/13

Sulfiknight Links
BIOL Databases Main Page	Sulfiknights: Project Overview Page	Final Project Deliverables Requirements	Sulfiknights: Final Project Deliverables	Members	Project Manager & Quality Assurance: Naomi Tesfaiohannes	Quality Assurance: Joey Nimmers-Minor	Data Analysis: Ivy-Quynh Macaraeg & Marcus Avila	Designer: DeLisa Madere
				Assignment Pages	Week 11	Week 12/13	Week 15

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Methods & Results

Sample to data relationship table:

• GSE6068_setA_family - swt vs nswt 1mM @ 1 hr (6 replicates); 15 min, 30 min, 18 hrs (3 replicates each)
• GSE6129_set0_family - swt vs nswt 1mM @ 1hr; 6 replicates
• GSE6129_set1_family - swt vs nswt .2mM @ 1 hr, 15 min, 30 min, 18 hr; 3 replicates each
• GSE6129_set2_family - sYAP4 vs swt .2mM AND 1 mM each @ 1 hr, 3 replicates each
• GSE6129_set3_family - sMET4 vs swt .2mM AND 1 mM each @ 1 hr, 3 replicates each

ANOVA

Organizing Data Sheet

1. Downloaded data from Thorsen et al.
2. Inserted MasterIndex count as column A.
3. Changed "Name" to "Standard_ID" in column C.
   • Names were changed to the standard names by
4. Changed column headers in each sheet:
   • swt = stressed wild type, nswt= nonstressed wild type
   • 1mM, 0.2mM = concentration of As(III) at which the cell was exposed
   • 1h, 15m, 30m, 18h = time point (h = hours, m = minutes)
   • rn = replicate number (n)

Calculating p-values

Sanity Check: 1068/4785 p-values are less than 0.05

References

• Thorsen, M., Lagniel, G., Kristiansson, E., Junot, C., Nerman, O., Labarre, J., & Tamás, M. J. (2007). Quantitative transcriptome, proteome, and sulfur metabolite profiling of the Saccharomyces cerevisiae response to arsenite. Physiological genomics, 30(1), 35-43. DOI: https://doi.org/10.1152/physiolgenomics.00236.2006