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Endometriosis is a complex gynecological disorder. The diagnostic process of endometriosis involves an invasive procedure thus delaying the diagnosis for about 10 years on average. Both DNA-methylation data and RNA-seq data has the potential to uncover molecular mechanisms of diseases. The objective of this project is to identify diagnostic molecular mechanisms of endometriosis using a multi-omics...
High-throughput methylation detection approaches are epigenetic exploration strategies that map sites of DNA methylation to the genome and thus provide insight into the regulatory program of specific cells. Using methyl-binding domain affinity proteins, MBD2-based Methyl-Seq has been established to identify short regions in which a minimum of 5 CpG residues are methylated within a 200bp window requiring...
DNA methylation and histone modifications form the epigenetic code. Cytosine methylation maintains an inactive-condensed chromatin state and is involved in many cellular events such as gene expression, chromosomal stability, cell differentiation, and carcinogenesis. CpG islands (CGIs), which are stretches of DNA in vertebrate organisms with an over-representation of the CpG dinucleotide, are naturally...
Schizophrenia (SZ) is a complex disease caused by a lot genetic variants, epigenetic and brain region abnormalities. In this study, we adopted a joint nonnegative matrix factorization method to integrate three datasets including single nucleotide polymorphism (SNP), brain activity measured by functional magnetic resonance imaging (fMRI) and DNA Methylation to identify multi-dimensional modules associated...
DNA methylation is an important epigenetic mark relevant to normal development and disease genesis. A common approach to characterizing genome-wide DNA methylation is to use Next Generation Sequencing technology to sequence bisulfite treated DNA. The short sequence reads are mapped to the reference genome to determine the methylation status of Cs. However, despite intense effort, a much smaller proportion...
DNA methylation was found previously related with histone modifications. The relationship among DNA methylation and histone modifications is potentially identifiable by integrating ChIP-seq and methylation data. However, little has been addressed on this issue in literature. Predicting DNA methylation can largely avoid the high cost of bisulfite-converted DNA experiments and drawbacks of micro array-based...
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