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PCDq: human protein complex database with quality index which summarizes different levels of evidences of protein complexes predicted from H-Invitational protein-protein interactions integrative dataset

Shingo Kikugawa, Kensaku Nishikata, Katsuhiko Murakami, Yoshiharu Sato, Mami Suzuki, Md Altaf-Ul-Amin, Shigehiko Kanaya, Tadashi Imanishi
2012 BMC Systems Biology  
Description: Based on integrated PPI data and literature, we have developed a human protein complex database with a complex quality index (PCDq), which includes both known and predicted complexes and subunits  ...  Conclusions: We constructed a new protein complex database PCDq including both predicted and curated human protein complexes.  ...  The evidence level for each subunit was also determined and summarized as a complex quality index (CQI) for each protein complex.  ... 
doi:10.1186/1752-0509-6-s2-s7 pmid:23282181 pmcid:PMC3521179 fatcat:4lgm4rkjrfbyrp6jjy7ynd6mpm

Exploring triad-rich substructures by graph-theoretic characterizations in complex networks

Songwei Jia, Lin Gao, Yong Gao, James Nastos, Xiao Wen, Xindong Zhang, Haiyang Wang
2017 Physica A: Statistical Mechanics and its Applications  
Motivated by the observation that metadata groups in PPI networks tend to consist of an abundance of interacting triad motifs, we define a 2-club substructure with diameter 2 which possessing triad-rich  ...  One of the most important problems in complex networks is how to detect metadata groups accurately.  ...  For HsaHPRD, we use the sets of Human Protein Complex Database with a Complex Quality Index (PCDq) [36] , Comprehensive Resource of Mammalian Protein Complexes (CORUM) [37] and H. sapiens GO terms (  ... 
doi:10.1016/j.physa.2016.10.021 fatcat:k6mdvhe5anbzdexq7dlnb52p4a