DAY 1: Advanced Microarray Data Analysis

           2월 18일(월)

시간

  주  제

강 사

8:00 ~ 9:00

9:00 ~ 9:20

김주한 교수

9:20 ~ 10:10

Gene Expression Analysis
- Normalization
- Differential Expression Analysis
- Classification Analysis

김주한 교수
(서울의대)

10:20 ~ 11:40

실 습 I: Bioconductor
          t-test, SAM, ANOVA, FDR
          LDA, DTs, SVMs

나영지, 이수연

11:40 ~ 12:40

  중  식

12:40 ~ 13:30

Gene-set Approaches & Prognostic Subgroup Prediction
- Gene Set Database
- Gene Set Enrichment Analysis
- Prognostic Subgroup Prediction

조성범 박사
(국립보건연구원)

13:50 ~ 15:00

실 습 II: Gene Set Enrichment Analysis
           Cox-PH, Log Rank Test            ArrayXPath, David

김도균, 서희원

15:10 ~ 16:00

Clustering & eQTL analysis of gene expression data
- Clustering Analysis
- Cis- and trans-expression QTL
- eQTL hotspots
- Connection to GWAS

손경아 박사
(서울의대)

16:10 ~ 17:30

실 습 III: KNN, SOM, HC, PCA
           eQTL resources

이수연, 백수연

DAY 2: Next Generation Sequencing & Personal Genome Data
          Analysis

          2월 19일(화)

시간

  주  제

강 사

8:30 ~ 9:30

9:30 ~ 9:50

Next Generation Sequencing & Personal Genome Data Analysis

 김주한 교수

9:50 ~ 10:40

NGS Platforms and Applications
- Current NGS Platforms
- NGS Data Formats
- NGS Data Analysis Technologies
- NGS Applications

김지훈 박사
(마크로젠)

10:50 ~ 12:10

실 습 I: NGS Data Processing
         NGS Sequence Alignment
         NGS Visualization Tools

나영지, 임재현

12:10 ~ 13:10

  중  식

13:10 ~ 14:00

Exome Sequencing Analysis
- Exome Sequencing Data
- Exome Sequencing of Rare Disease
- Variant Analysis and Annotation

김남신 박사
(생명공학연구원
KOBIC)

14:10 ~ 15:30

실 습 II: SNP and Indel Identification
          Variant Analysis and Annotation

박찬희, 서희원

15:40 ~ 16:30

Personal Genome Interpretation
- Phenotype Annotation
- Genetic Risk Prediction
- Healthcare Application

김주한 교수
(서울의대)

16:40 ~ 18:00

실 습 III: Exome-seq Analysis for Disease
           Family Sequencing Data Processing
           Detection of Disease-causing Variations

서희원, 나영지

DAY 3: RNA-seq, Disease Genome Data Analysis

          2월 20일(수)

시간

  주  제

강 사

8:30 ~ 9:30

9:30 ~ 9:50

RNA-seq, Disease Genome Data Analysis

 김주한 교수

9:50 ~ 10:40

RNA-Seq Data Analysis
- Novel Transcript Discovery
- Alternative Splicing Identification
- RNA-editing Analysis
- Differentially Expressed Genes Identification

정제균 박사
(서울의대)

10:50 ~ 12:10

실 습 I: TopHat, Cufflinks
          RNA-Seq Gene Expression Analysis           Gene Fusion Analysis

서희원, 임재현

12:10 ~ 13:10

  중  식

13:10 ~ 14:00

Cancer Disease Genome Informatics
- Cancer Genome Analysis
- Identifying Genomic Rearrangement
- Gene Fusion Analysis
- Rare Disease Analysis

김남신 박사
(생명공학연구원
KOBIC)

14:10 ~ 15:30

실 습 II: TCGA Data Analysis
           Cancer Genome Analysis (Mutation
           Plotting, Network Analysis, Visualization,
           Mutation, Methylation, Survival Analysis)

김도균, 임재현

15:40 ~ 16:30

Genome-wide Copy Number Variation Analysis
- CNV in Diseases
- CNV Database
- CNV Data Processing
- Copy Number Detection

김봉조 박사
(국립보건연구원)

16:40 ~ 18:00

실 습 III: Cancer Genomic Rearrangement
           Rare Disease Analysis
           Identification of CNV Regions

이수연, 백수연

DAY 4: Network Biology, Sequence, Pathway and Ontology
          Informatics

          2월 21일(목)

시간

  주  제

강 사

8:30 ~ 9:30

9:30 ~ 9:50

Network Biology, Sequence, Pathway and Ontology Informatics

 김주한 교수

9:50 ~ 10:40

Motif and Regulatory Sequence Analysis
- Sequence Motif Analysis
- Genome Sequence Analysis
- Genome Browser

정해영 박사
(생명공학연구원)

10:50 ~ 12:10

실 습 I: TF Target Prediction for Metagenomes
          Phylogenetic Analysis (ClustalW &
          TreeView)
          UCSC Genome Browser

조용래, 정용

12:10 ~ 13:10

  중  식

13:10 ~ 14:00

Molecular Pathway & Gene Ontology
- Biopathway Analysis
- Gene Ontology & Pathway Database and Tools
- Biological Literature and Text Mining

14:10 ~ 15:30

실 습 II: Pathway, Gene Ontology Analysis           BioLattice, Pubgene
          Biological Text Mining

윤준희, 백수연

15:40 ~ 16:30

Biological Network Analysis
- Characteristics of Biological Network
- Protein-protein Interaction Network Analysis
- Regulatory Network Analysis

이기영 교수
(아주대)

16:40 ~ 18:00

실 습 III: Network Analysis (Cytoscape, igraph)            Properties of Interaction
           Network Visualization

서희원, 임재현

DAY 5: SNPs, GWAS, PheWAS & EWAS: Informatics for Variations

          2월 22일(금)

시간

  주  제

강 사

8:30 ~ 9:30

9:30 ~ 9:50

SNPs, GWAS, PheWAS and EWAS: Informatics for Variations

 김주한 교수

9:50 ~ 10:40

SNP Data Analysis
- Linkage Disequilibrium Analysis
- Haplotype Estimation
- LD Blocking, Tagging SNPs Selection

박지완 교수
(한림의대)

10:50 ~ 12:10

실 습 I: Haplotype Estimation, LD Blocking
          dbSNP Database
          Pharmacogenetic Analysis (PharmGKB)

윤준희, 김도균

12:10 ~ 13:10

  중  식

13:10 ~ 14:00

GWAS Data Analysis
- Genotype & Haplotype
- Rare Variant Analysis
- Runs of Homozygosity (ROH)
- Regression-based Testing

이채영 교수
(숭실대)

14:10 ~ 15:30

실 습 II: GWAS Catalog
          GWAS test with PLINK software

박찬희, 조용래

15:40 ~ 16:30

PheWAS & EWAS Data Analysis
- Beyond GWAS
- Phenome-Wide Association Study (PheWAS)
- Environment-Wide Association Study (EWAS)

김도균 박사
(서울의대)

16:40 ~ 18:00

실 습 III: PheWAS analysis
           PheWAS view
           Synthesis view
           Phenogram 

김도균, 서희원