Services

NGS

Methylation Sequencing

Targeted Methylation Sequencing

Targeted methylation sequencing is a technology to analyze methylation of selected areas of the genome of interest such as CoG islands or specific gene promoters. The method allows investigation of the main methylation with a smaller amount of sequencing data in comparison to the whole genome bisulfite sequencing[1].

Application

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

Sample/Laboratory Information

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

BioinformaticsDetail View

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

Through bisulfite sequencing, DNA methylation level for cytosine context (CpG, CHG, CHH) present on whole genome can be analyzed. The data is used to study epigenetic phenomena at the molecular level, and differential methylated regions between samples/groups can be identified, and genomic contents in the area can be annotated to determine the effect on gene expression. As an example, Theragen Bio has published a study of platycoses biosynthesis using whole genome bisulfite sequencing data in bellflower[1].

Application

  • 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

Sample/Laboratory Information

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

BioinformaticsDetail View

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 sequencing is a technology that combines chromatin immunoprecipitation (ChIP) and next generation sequencing (NGS), and enables identification of the binding sites of DNA binding proteins. The binding sites identified by ChIP sequencing can accurately predict the epigenetic state of each cell type, and this epigenetic information is essential for fully understanding the regulation of cellular processes, cell differentiation processes, or disease progression mechanisms.

Sample/Laboratory Information

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

BioinformaticsDetail View

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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