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a. Likely false-positive identified by synteny (Kellis et al. 2003); overlapping or adjacent gene with similar phenotype; removed from data analysis ORF YBR266C YDR008C YDR433W YDR442W YGR182C YGR219W YHL037C YHL041W YJL022W YJL120W YKL118W YLR062C YLR184W YLR261C YLR294C YLR322W YLR338W YLR358C YML012C-A YML101C-A YNL028W YNL184C YNL296W YNR042W YOR139C YOR183W YOR331C YPL080C YPL102C YPR099C Neighbor YBR267W TRP1 NPL3 SSN2 QCR9 MRPL9 MUP3 YHL042W PET130 RPE1 VPH2 RPL22A RPL37A YPT6 ATP14 MMS22 VRP1 RSC2 SEL1 CAC2 KTR5 MRPL19 MON2 COQ2 SFL1 RPS30B VMA4 RPL21B ELP4 MRPL51 Type overlap overlap overlap overlap adjacent overlap adjacent adjacent overlap overlap overlap overlap adjacent overlap overlap adjacent overlap overlap overlap overlap overlap overlap overlap overlap overlap adjacent overlap adjacent overlap overlap Process biological process unknown tryptophan biosynthesis mRNA-nucleus export negative regulation of transcription aerobic respiration protein biosynthesis amino acid transport biological process unknown biological process unknown pentose-phosphate shunt protein complex assembly protein biosynthesis protein biosynthesis intracellular protein transport ATP synthesis coupled proton transport double-strand break repair actin filament organization chromatin modeling protein secretion DNA repair cell wall organization and biogenesis protein biosynthesis protein-vacuolar targeting ubiquinone metabolism negative regulation of transcription protein biosynthesis vacuolar acidification protein biosynthesis regulation of transcription protein biosynthesis Other- likely false positives – removed from data analysis YGL024C YGL025C YJL175W TRP5 TRP5 SWI3 adjacent adjacent overlap tryptophan biosynthesis tryptophan biosynthesis chromatin modeling b. Likely false-positives identified by synteny—overlapping or adjacent gene has different phenotype--not removed from data analysis. YBL062W YDL068W YDR010C YDR095C YDR241W YEL059W YGL218W YGR259C YHL045W YHR130C YJL199C YJR018W YNL170W YNL179C YNL228W YOR200W
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