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NGS

Methylation Sequencing

Targeted Methylation Sequencing

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].

적용 가능 연구

  • Profiling dysregulation of DNA methylation
  • Studying genotype-environment interactions and disease-related patterns
  • Investigation of individual variation in disease susceptibility

샘플&실험정보

샘플&실험정보
Sample Requirement gDNA > 3µg (minimum 2µg),60ng/µl, DIN > 6
Library Kit Agilent
Sequencing Platform Illumina NovaSeq6000
Recommended Sequencing Depth ≥ 20 million read pairs per sample

생명정보학 분석자세히 알아보기

Workflow
Methylation Sequencing

Standard Analysis

Sequencing data preprocessing

Alignment bisulfite sequencing data to genome

Methylation calling

Differential methylated region (DMR) analysis

Differential methylated region (DMR) annotation

Standard Analysis

Reference

    [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

FAQ
Bisulfate Sequencing

Bisulfite Sequencing

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].

적용 가능 연구

  • Profiling DNA methylation
  • Studies on phenotypic diversity and evolution in plants and animals
  • Understanding of epigenetic alternations of pathogenetic pathways
  • Early diagnosis of diseases and cancers through the detection of DNA hypermethylation or hypomethylation

샘플&실험정보

샘플&실험정보
Sample Requirement gDNA > 3µg (minimum 2µg),60ng/µl, DIN > 6
Library Kit Swift
Sequencing Platform Illumina NovaSeq6000
Recommended Sequencing Depth For effective sequencing depth 50X

생명정보학 분석자세히 알아보기

Workflow
Bisulfate Sequencing

Standard Analysis

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

Standard Analysis

Advanced Analysis

Methylation rate (CpG, CHG, CHH)

Methylation pattern (Upstream, Genebody, Downstream)

Density of differentially methylated cytosines (DMCs)

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Advanced Analysis

Reference

    [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.

FAQ
ChiP Sequencing

ChIP Sequencing

ChIP sequencing는 염색질 면역 침전(ChIP)과 차세대 염기서열 분석(NGS)을 결합한 시퀀싱으로, 데이터를 분석하여 DNA 관련 단백질의 결합 부위를 식별할 수 있습니다. 식별된 결합 부위는 각 세포 유형의 후성유전적 상태를 정확하게 예측할 수 있으며, 후성 유전 정보는 세포 과정의 조절, 세포의 분화 과정 또는 질병 진행 메커니즘을 완전히 이해하는 데 필수적입니다.

샘플&실험정보

샘플&실험정보
Sample Requirement gDNA > 3µg (minimum 2µg)
Library Kit Illumina
Sequencing Platform Illumina NovaSeq6000
Recommended Sequencing Depth ≥ 20 million reads per sample

생명정보학 분석자세히 알아보기

Workflow
ChiP Sequencing

Standard Analysis

Sequencing data preprocessing

Local alignment to genome

Chromatin immunoprecipitation quality check

Peak calling

Peak annotation

Transcription factor motif analysis

Standard Analysis
FAQ
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