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) |