Regulation of gene expression is associated with open sites and the accessibility of the genome. Mutations in chromatin remodeling factors are associated with multiple aspects of human health. CD Genomics reveals and infers genome-wide chromatin changes as well as chromatin accessibility characteristics by combining epigenomic and transcriptomic sequencing data, or other databases.
Chromatin Accessibility & Conformation
Chromatin accessibility refers to the extent to which nuclear macromolecules can physically contact achromatized DNA, as determined by the occupancy and topology of nucleosomes and other chromatin binding factors that impede access to DNA. "Compact" structure prevents efficient transcription of target genes. Thus, the degree of structural "openness" of chromatin represents the degree of accessibility.
Our bioinformatics services are designed to bridge the limitations of current genome-wide chromatin accessibility data analysis and help clients derive more epistemic regulatory mechanisms from raw data to develop a wide range of applications, including cell proliferation research, functional diversification, and disease development research, etc.
What Do We Analyze?
Assay for transposase-accessible chromatin with high throughput sequencing (ATAC-seq) uses Tn5 transposase to obtain "open" chromatin DNA fragments, which are then sequenced and analyzed for deeper investigation of chromatin conformational changes.
Chromatin immunoprecipitation with NGS (ChIP-seq) is the core method for epigenomic studies. It uses specific antibodies to selectively enrich chromatin fractions containing specific DNA-binding proteins or histone modifications for genome-wide analysis.
Hi-C Seq uses restriction enzymes for restriction digestion of the genome and is able to score the contact frequency between almost any pair of genomic loci, examining genomic 3D organization at multiple scales.
Our Data Services Includes
- Raw sequencing data process and quality control
- Read mapping
- Peak calling and data quality assessment
- Data visualization and normalization
- Histone modification data analysis
- Transcription factor binding site analysis
- Functional enrichment analysis
- Chromatin-state annotation
- Prediction of gene expression and chromatin interactions
- Custom large-scale data integration analysis
How We Can Help You
- Meta-analysis of different samples using chromatin data generated from multiple studies
- Combining open and custom genomic data available for downstream analyses such as EWAS
- Exploring cell-specific binding sites and transcription factors
- Uncovering the genome-wide chromatin accessible landscape in cancer and other diseases
- Integrating other omics data for further analysis, including RNA-Seq, methylation data, etc., to reveal the relationship and characteristics between methylation and chromatin states
- If you do not have data generated, please contact us for project design and sequencing services
How It Works
CD Genomics is a high-tech company specializing in multiomic data analysis. We provide services such as project design, data analysis, and database construction. With a focus on developing breakthrough products and services, we are a pioneer in the biotechnology industry, serving researchers and partners worldwide.
Why Choose Us
- Experienced team to manage all data, determining the most appropriate statistical methods and providing biological interpretation of the results
- Interactive data analysis reports, including all analysis methods and results
- Technical support from our lead analyst upon receipt of our data analysis reports
- High-capacity computing and secure data storage
