Additional file 3.
PoP of elements in simulated mutants versus phenotypes manually curated by SGD in the corresponding mutants. The spreadsheet le is composed of 6 sheets (one for each type of phenotype). Each sheet contains the simulated PoP on the left and the SGD phenotypes on the right panel (as they appeared in the original file). One phenotype can be represented by multiple lines when multiple articles reproduced it. ND = no difference between the WT and the mutant were observed. Red cells mean that the differences observed in the in silico mutant is not in agreement with the experimental observations. Yellow cells mean that the differences observed in the in silico mutant is not in agreement with the experimental observations as referenced by SGD but that a more recent publication is in agreement with our simulations (the happened once, see text for more details). Columns in the "SGD Reference" section: - Reference (SGD REF Required, PMID optional) -PMID: #### SGD REF: #### (separated by pipe)(one reference per row) - Experiment Type (Mandatory) -The method used to detect and analyze the phenotype - Mutant Type (Mandatory) -Description of the impact of the mutation on activity of the gene product - Allele (Optional) -Allele name and description, if applicable - Strain Background (Optional) -Genetic background in which the phenotype was analyzed - Phenotype (Mandatory) -The feature observed and the direction of change relative to wild type - Chemical (Optional) -Any chemicals relevant to the phenotype - Condition (Optional) -Condition under which the phenotype was observed - Details (Optional) -Details about the phenotype - Reporter (Optional) -The protein(s) or RNA(s) used in an experiment to track a process
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Achcar et al. BMC Systems Biology 2011 5:51 doi:10.1186/1752-0509-5-51