서비스
Targeted methylation sequencing은 DNA methylation 데이터를 이용한 후성유전학 연구에서 주요한 Genomic contents을 타깃하여 시퀀싱 하는 방법으로, CpG island, Promoter region 등의 CpG methylation level 을 확인할 수 있습니다. Whole genome bisulfite sequencing 데이터보다 작은 양의 시퀀싱 데이터만으로 주요한 Methylation pattern을 확인할 수 있습니다[1].
Sample Requirement | gDNA > 3µg (minimum 2µg),60ng/µl, DIN > 6 |
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Library Kit | Agilent |
Sequencing Platform | Illumina NovaSeq6000 |
Recommended Sequencing Depth | ≥ 20 million read pairs per sample |
Sequencing data preprocessing
Alignment bisulfite sequencing data to genome
Methylation calling
Differential methylated region (DMR) analysis
Differential methylated region (DMR) annotation
[1] Shin, H. Y. et al., (2020). Alteration in global DNA methylation status following preconditioning injury influences axon growth competence of the sensory neurons. Experimental neurology, 326, 113177.
[2] Kato, N. et al., (2015). Trans-ancestry genome-wide association study identifies 12 genetic loci influencing blood pressure and implicates a role for DNA methylation. Nature Genetics, 47(11), 1282–1293. https://doi.org/10.1038/ng.3405
Bisulfite sequencing 을 통해 Whole genome 상에 존재하는 Cytosine context(CpG, CHG, CHH)에 대한 DNA methylation level 을 확인할 수 있습니다. 후성유전적 현상을 Molecular 수준에서 연구하는 데 사용되며, 샘플 및 그룹 간 Differential methylated region을 확인하고 해당 영역의 Genomic contents를 Annotation 하여 유전자의 발현에 미치는 영향을 확인할 수 있습니다.테라젠바이오는 도라지에서 Whole genome bisulfite sequencing 데이터를 이용해 Platycosides biosynthesis 를 연구한 바 있습니다[1].
Sample Requirement | gDNA > 3µg (minimum 2µg),60ng/µl, DIN > 6 |
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Library Kit | Swift |
Sequencing Platform | Illumina NovaSeq6000 |
Recommended Sequencing Depth | For effective sequencing depth 50X |
Reference building for non-human species
Sequencing data preprocessing
Alignment bisulfite sequencing data to genome
Methylation calling
All cytosine context (CpG, CHG, CHH)
Differential methylated region (DMR) analysis
Differential methylated region (DMR) annotation
Methylation rate (CpG, CHG, CHH)
Methylation pattern (Upstream, Genebody, Downstream)
Density of differentially methylated cytosines (DMCs)
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[1] Kim, J. et al., (2020). Whole-genome, transcriptome, and methylome analyses provide insights into the evolution of platycoside biosynthesis in Platycodon grandiflorus, a medicinal plant. Horticulture research, 7, 112.
Sample Requirement | gDNA > 3µg (minimum 2µg) |
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Library Kit | Illumina |
Sequencing Platform | Illumina NovaSeq6000 |
Recommended Sequencing Depth | ≥ 20 million reads per sample |
Sequencing data preprocessing
Local alignment to genome
Chromatin immunoprecipitation quality check
Peak calling
Peak annotation
Transcription factor motif analysis