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MeDIP-Seq

MeDIP-Seq ?

Epigenetics의 한 분야인 methylation 현상을 연구하기 위해 수 많은 방법이 개발되어 왔습니다. MeDIP (Methyl-binding domain-IP)는 methylated DNA fragment만을 enrichment하는 방법입니다. MeDIP-enriched DNA를 이용하여 whole genome resequencing을 수행하면 비교적 적은 비용으로 methylated DNA에 대한 whole genome profiling을 분석할 수 있습니다.

적용분야

  • Genome-wide methylation study
  • differential methylated region (DMR) 탐색
  • gene expression data와 연계한 통합 분석
  • cancer biomarker discovery

실험 Workflow

Bioinformatics 분석 Workflow

MeDIP-Seq - 실험 진행 과정

Sample requirements

concentration Concentration (ng/㎕) Quality
Genomic DNA > 5㎍ (in general) > 50 OD(260/280)>1.8 is highly recommended

Sequencing Strategy

50 PE (paired ends) sequencing (50 SE, 91 PE and 101 SE/PE sequencing (if needed))

Bioinformatic analysis - contents

contents
1차 분석
1. Data Filtering
2. Reads Alignment
3. Distribution of Uniquely Mapped Reads
4. Peak Scanning and Genome-wide Distribution
2차 분석 5. Difference Analysis of Multi-samples
5.1 Differential Analysis
5.2 GO Enrichment Analysis and KEGG Pathway Analysis
6. Combined Analysis of MeDIP-Seq with small RNA-seq
7. Combined analysis of MeDIP-Seq with mRNA expression data
8. Combined Analysis of MeDIP-Seq with small RNA-seq and mRNA Expression Data