SYSTEMATIC COLLECTION OF BASIS INFORMATION FOR PROTEIN INTERACTION PREDICTION

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1)We performed a comprehensive two-hybrid analysis for the budding yeast proteome and made the data available.2)We utilized the two-hybrid clone resource to conduct genome-wide screens for chromation bariier proteins as well as transcriptional activators.3)We developed two-hybrid footprinting, dual-bait reverse two-hybrid method, and accelerated phylogenetic footprinting to conduct interaction-targeting or targeted disruption of proteinprotein interactions.4)We conducted a search for rules for protein-protein interactions by means of data-mining using the association rule discovery.5)We compared yeast and mammalian systems of mutually interacting proteins including PB1-domain proteins and revealed two-different modes of target recognition by PB1 domains, enabling us to predict the PB1 interactions.6)We developed a novel TAP (Tandern Affinity Purification) tag that am be used with crosslinking agents for efficient interaction profiling.7)We developed a method of PAP (Parallel Affinity Purification) to enrich ubiquitinated proteins for degradome profiling.8)We developed a methylation-dependent one-hybrid system to examine interactions between methylated DNA and proteins.9)We developed HM-PCR for allelic methylation analysis and applied it to a comprehensive analysis of CpG islands on human chromosome 21.10)We developed a method for chimaerization-mediated activation of transcription factors and applied it to decipher a gene network regulating multidrug resistance of the budding yeast11)We systematically analyzed budding yeast full-length cDNA clones to reveal transcription starting sites for-4,000 genes.