Statistical and Computational Approaches for the Identification of Novel Viruses and Virus-host Interactions

报告题目:Statistical and Computational Approaches for the Identification of Novel Viruses and Virus-host Interactions




摘要:Viruses play important roles in controlling bacterial population size, altering host metabolism, and have broader impacts on the functions of microbial communities, such as human gut, soil, and ocean microbiomes. However, the investigations of viruses and their functions were vastly underdeveloped. Metagenomic studies provide enormous resources for the identifications of novel viruses and their hosts. We recently developed a k-mer based method, VirFinder, for the identification of novel virus contigs in metagenomic samples [1]. Applications to a liver cirrhosis metagenomic data suggest that viruses play important roles in the development of the disease. We also developed an alignment-free statistic, VirHost-Matcher, for the identification of bacterial hosts of viruses [2] and machine learning based approaches to identify new viruses infecting particular hosts with a relative large number of infecting viruses [3].

1.J Ren, NA Ahlgren, et al. (2017) Microbiome 5(1):69

2.NA Ahlgren, J Ren, et al. (2017) Nucleic Acids Research 45(1):39-53

3.MG Zhang, et al. (2017) BMC Bioinformatics (APBC2017) 18 (3), 60

孙丰珠教授简历:Dr. Fengzhu Sun is professor of Computational Biology and Bioinformatics (CBB) within the Department of Biological Sciences at the University of Southern California (USC) with joint appointment in the Department of Mathematics. He is also a guest professor at Fudan University. He is an elected fellow of the American Association for the Advancement of Sciences (AAAS) and American Statistical Association (ASA), an Astor visiting lecturer in statistics at Oxford University, and a program chair of RECOMB2013. He received the USC Provost’s Mellon Mentoring award in 2012 and USC Dornsife College Senior Raubenheimer award for excellence in research, teaching and service in 2017.