Mining Proteins Associated with Oral Squamous Cell Carcinoma in Complex Networks

Liu, Ying; Liu, Chuan-Xia; Wu, Zhong-Ting; Ge, Lin; Zhou, Hong-Mei

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자료유형: 학술저널

저자정보: Liu, Ying (State Key Laboratory of Oral Diseases, West China Hospital of Stomatology, Sichuan University) Liu, Chuan-Xia (State Key Laboratory of Oral Diseases, West China Hospital of Stomatology, Sichuan University) Wu, Zhong-Ting (State Key Laboratory of Oral Diseases, West China Hospital of Stomatology, Sichuan University) Ge, Lin (State Key Laboratory of Oral Diseases, West China Hospital of Stomatology, Sichuan University) Zhou, Hong-Mei (Department of Oral Medicine, West China School of Stomatology, Sichuan University)

저널정보: 아시아태평양암예방학회 Asian Pacific journal of cancer prevention : APJCP Asian Pacific journal of cancer prevention : APJCP 제14권 제8호

발행연도: 2013.1

수록면: 4,621 - 4,625 (5page)

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The purpose of this study was to construct a protein-protein interaction (PPI) network related to oral squamous cell carcinoma (OSCC). Each protein was ranked and those most associated with OSCC were mined within the network. First, OSCC-related genes were retrieved from the Online Mendelian Inheritance in Man (OMIM) database. Then they were mapped to their protein identifiers and a seed set of proteins was built. The seed proteins were expanded using the nearest neighbor expansion method to construct a PPI network through the Online Predicated Human Interaction Database (OPHID). The network was verified to be statistically significant, the score of each protein was evaluated by algorithm, then the OSCC-related proteins were ranked. 38 OSCC related seed proteins were expanded to 750 protein pairs. A protein-protein interaction nerwork was then constructed and the 30 top-ranked proteins listed. The four highest-scoring seed proteins were SMAD4, CTNNB1, HRAS, NOTCH1, and four non-seed proteins P53, EP300, SMAD3, SRC were mined using the nearest neighbor expansion method. The methods shown here may facilitate the discovery of important OSCC proteins and guide medical researchers in further pertinent studies.

#Protein-protein interaction #nearest neighbor expansion #oral squamous cell carcinoma

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Liu, Ying

소속기관 Department of Otolaryngology/Head and Neck Surgery, Second Affiliated Hospital of Harbin Medical Uni