서울대학교 생물정보연구소와 생물정보학 협동과정 공동 주최로 세미나를 아래와 같이 열고자 하오니, 많은 참여 바랍니다.

일시: 2018년 4월 26일 목요일 오후 5시

연사: 남덕우(울산과학기술원)

장소: 서울대학교 25동 411호

TITLE: Pathway and network analysis of gene expression and GWAS data

ABSTRACT: Pathway or gene-set analysis (GSA) has been commonly used to identify dysregulated pathways or functions from transcriptomic and genomic data. However, GSA yields a long list of gene-sets in many cases, rendering it difficult to identify core themes. Existing methods cluster the gene-sets based on overlap between gene-sets to summarize the GSA results without considering interactions between gene-sets. We presented a novel network-weighted gene-set clustering that incorporates both the gene overlap and protein-protein interaction networks (PPIs). Examples for RNA-seq and GWAS data analysis were demonstrated. These examples as well as a global analysis show that the proposed method considerably increases PPI densities and functional relevance of the resulting clusters. Additionally, distinct properties of gene-set distance measures were analyzed. The methods are implemented by a web server, Expathnet which provides independent gene-set enrichment analysis module, gene-set clustering module, as well as diverse functions for visualization and exploration of gene-set and PPI networks.

EDUCATION AND TRAINING

B.S. Seoul National University, 1996

Ph.D. KAIST, 2002

Postdoctoral Research Fellow, Korea Research Institute for Bioscience and Biotechnology, 2002-2003

Senior Researcher, Korea Research Institute of Bioscience and Biotechnology, 2004-2007

Senior Researcher (Principal Investigator), National Institute of Mathematical Sciences, 2007-2010

SELECTED PUBLICATION

Dougu Nam*, Seunghyun Seo and Sangsoo Kim, An efficient top-down search algorithm for learning Boolean networks of gene expression, Machine Learning 65, 229-245 (2006).

Dougu Nam, Sang-Bae Kim, Sun-Kyu Kim, Sungjin Yang, Seon-Young Kim and In-Sun Chu*, ADGO: analysis of differentially expressed gene sets using composite GO annotation, Bioinformatics, 22, 2249-2253 (2006).

Dougu Nam*, Sung Ho Yoon, Jihyun F. Kim*, Ensemble learning of genetic networks from time-series expression data, Bioinformatics, 23, 3225-3231 (2007).

Dougu Nam, Seon-Young Kim*, Gene-set approach for expression pattern analysis, Briefings in Bioinformatics, 9 (3), 189-197 (2008).

Dougu Nam, Jin Kim, Seon-Young Kim, Sangsoo Kim, GSA-SNP: a general approach for gene set analysis of polymorphisms, Nucleic Acids Research (2010).

Dougu Nam, De-correlating expression in gene-set analysis, Bioinformatics (2010)

서울대학교 생물정보연구소

생물정보학 협동과정 공동주최