Marmas Week 12/13

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Purpose

The purpose of the project is to analyze the mircroarray data of a previously performed experiment titled "Effects of the Pesticide Thiuram:  Genome-wide Screening of Indicator Genes by Yeast DNA Microarray" (Kitagawa et al., 2002). The group will begin data analysis and organization of deliverables. Milestones are established to keep up with the workload due by the end of the semester. Milestones are can be found on the Fungals Team Page. For the week of November 18th, the Coder/Designer guild will establish a meta data sheet and universalize column header nomenclature.

Account of Activity

• A Metadata sheet was made with assistance from Mihir Samdarshi and DeLisa Madere. This sheet is used to show ana analyze the relationship between the samples and the corresponding data. Categories remain universal between all groups.
  • Categories chosen for the metadata sheet were article title, PubMed ID, authors, yeast strain, treatment, concentration value, concentration units, time value, and time units.
  • The Metadata sheet can be found in the Data and Files section of this page.
• To categorize columns, a nomenclature was chosen amongst the three coders/designers to reflect ample information of each sample. The nomenclature for the samples is yeastStrain_treatmentOrMutation_concentrationWithUnits_LogFC_t+timeWithUnits-replicate.
  • For example, to title the column for the log fold change of first replicate of a sample treated with 75uM Thiuram for 15 minutes would be S288C_thiuram_75uM_LogFC_t15m-1.

Data and Files

Metadata Sheet

• Note: This data sheet is current as of 9:30pm on Nov 11, 2019. Other groups will add information at another time.