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- Homo sapiens
Publication for MethCGI
A Novel Computational Method for Detecting DNA Methylation Sites with DNA Sequence Information and Physicochemical Properties
[…] ds of 5-methyl-cytosine content data as well as 6312 records of individual patterns/profiles. MethDB has been used as a benchmark dataset by many methylation predictors, like iDNA-Methyl, Methylator, MethCGI, and so on. So, we use this dataset to test and analyze our method.We extracted DNA sequences from the MethDB to construct positive and negative datasets. The extraction process is the same as […]
Gene expression and nucleotide composition are associated with genic methylation level in Oryza sativa
[…] ributions of hexamer motifs that are related to transcription factor binding sites, Das and colleagues  developed HDFINDER, which achieves 86% accuracy for the prediction of methylation levels. The MethCGI tool, developed by Fang and colleagues , uses an SVM approach to analyze GC and CpG composition to predict methylation-prone and the methylation-resistant CpG islands. Another tool for the p […]
A novel k mer mixture logistic regression for methylation susceptibility modeling of CpG dinucleotides in human gene promoters
[…] setting (which is the case for DNA methylation data), called "cluster_boost", was recently developed by Goh et al and used to identify novel hypermethylated genes in cancer . Fang et al developed "MethCGI" to predict the methylation status of CpG islands using a support vector machine and both local sequence context and transcription factor binding sites . Finally, a prediction method using D […]
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