Table 2.

Negative validation set. The list of the protein pairs that our known not to interact. This list was used to evaluate PIPE's accuracy to detect protein interactions.

Protein A	Protein B	Protein A	Protein B	Protein A	Protein B
YAL003W	YDL232W	YCL004W	YDL168W	YLR170C	YNL137C
YAL047C	YBR243C	YCL009C	YDR077W	YLR170C	YOR346W
YAR071W	YCL030C	YCL018W	YDL078C	YLR170C	YPL048W
YBL068W	YBL099W	YCL025C	YDR079W	YLR170C	YPL147W
YBL068W	YLR170C	YCL040W	YDR086C	YLR195C	YMR203W
YBL068W	YNR006W	YCL050C	YCL057W	YLR195C	YNR006W
YBL068W	YPL029W	YCR005C	YDL022W	YLR244C	YMR203W
YBL079W	YBL090W	YCR021C	YCR053W	YLR244C	YPL147W
YBL079W	YBL099W	YCR094W	YMR170C	YMR011W	YMR203W
YBL079W	YKL122C	YDL028C	YDL066W	YMR011W	YNL137C
YBL079W	YMR203W	YDL055C	YBR243C	YMR011W	YOR025W
YBL079W	YNL137C	YDL067C	YDL212W	YMR011W	YPL048W
YBL079W	YPL147W	YDL142C	YDL159W	YMR011W	YPL147W
YBL079W	YPR133W-A	YDL236W	YDR086C	YMR203W	YNL029C
YBL084C	YBL090W	YDR001C	YDL137W	YMR203W	YNR043W
YBL084C	YBL099W	YDR044W	YCR014C	YMR203W	YOR025W
YBL084C	YLR170C	YDR144C	YAL003W	YMR203W	YPL048W
YBL084C	YNL137C	YGL055W	YLR170C	YMR203W	YPL147W
YBL090W	YGL055W	YGL055W	YNR006W	YMR261C	YNL137C
YBL090W	YKL122C	YHR041C	YDR538W	YMR261C	YNR006W
YBL090W	YLR170C	YIL021W	YBR177C	YMR261C	YOR321W
YBL090W	YMR203W	YKL122C	YKL181W	YMR261C	YPL147W
YBL090W	YOR321W	YKL122C	YLR170C	YMR261C	YPR133W-A
YBL090W	YPR133W-A	YKL122C	YLR195C	YNL029C	YNL137C
YBL099W	YGL055W	YKL122C	YMR203W	YNL029C	YNR006W
YBL099W	YKL122C	YKL122C	YNL137C	YNL029C	YOR025W
YBL099W	YLR170C	YKL122C	YOR346W	YNL029C	YPL147W
YBL099W	YNR006W	YKL122C	YPL048W	YNL137C	YNR043W
YBL099W	YOR346W	YKL122C	YPL147W	YNL137C	YOL136C
YBR208C	YCR048W	YKL181W	YLR170C	YNL137C	YOR025W
YBR218C	YDL077C	YKL181W	YMR203W	YNL137C	YPL147W
YBR236C	YCR011C	YKL181W	YNL137C	YNR006W	YOR025W
YBR237W	YDL090C	YLR170C	YMR203W	YNR006W	YPL048W
YBR248C	YDL194W