ChIP-Seq 해독 생명정보 분석

1. Data filtering: Data filtering includes removing adaptors, contamination and low-quality reads from raw reads.

2. Standard bioinformatics analysis:

1. Reads Alignment

2. Genome-wide Distribution of ChIP Sequencing Reads

2.1 Unique Mapped Reads Distribution in Repeats

2.2 Unique Mapped Reads Distribution in Intergenic and Gene Regions

2.3 Genome-wide Depth of Unique Mapped Reads

3. Peak Scanning and Distribution

3.1 Peak Scanning

3.2 Peak Length Distribution

3.3 Peak Coverage

3.4 Peak Distribution in Genome Elements

4. Peak-related Genes scanning and GO Function Analysis

4.1 Peak-related Genes Scanning

4.2 Go Function Analysis of Peak-related Genes

5. Difference Analysis of Multi-samples

5.1 Difference Analysis Based on Peaks

5.2 Difference Analysis Based on Peak-related Genes

6. UCSC Genome Browser instrunction

3. Personalized analysis :

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 Collaborator)