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H > ¼­ºñ½º > Next-Generation Sequencing (NGS) > ChIP-Seq

ChIP-Seq

ChIP-Seq ?

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  • Transcription factor binding site ¿¬±¸
  • Histone modification ¿¬±¸
  • Protein-DNA interaction ¿¬±¸

½ÇÇè Workflow

Bioinformatics ºÐ¼® Workflow

ChIP-Seq - ½ÇÇè ÁøÇà °úÁ¤

Sample requirements

concentration Concentration (ng/§¡) Quality
IP enriched DNA > 10§¶ (in general) > 1 OD(260/280)>1.8 is highly recommended .
DNA fragment : between 100 bp ~ 500bp

Sequencing Strategy

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

Bioinformatic analysis - contents

contents
1Â÷ ºÐ¼®
1. Data Filtering
2. Reads Alignment
3. Genome-wide Distribution of ChIP Sequencing Reads
4. Peak Scanning and Distribution
5. Peak-related Genes Scanning and GO Function Analysis
6. Difference Analysis of Multi-samples
7. UCSC Genome Browser instruction
2Â÷ ºÐ¼® 1. ChIP Sequencing Reads Distribution around TSS
2. Motif analysis
2.1 Candidate Motif Scanning
2.2 Known Motif Analysis (database should be provided by customer)