Reference: Kaur H et. al., (2019) Classification of early and late stage liver hepatocellular carcinoma
patients from their genomics and epigenomics profiles. PLoS One. 14(9):e0221476.

Predicting Cancer Stage status of a Single Subject/patient from the Methylation data of CpG sites

This tool allows the users to submit methylation beta values of CpG sites (Probe IDs associated with CpG sites) and predict the cancer status using methylation data of 5 signature CpG sites, resulting from analysis of methylation array intensity data of Liver Hepatocelluar Carcinoma from TCGA dataset downloaded from GDC Data portal . This method requires methylation beta values of CpG sites in each patient to predict status of cancer i.e. whether subject is in stage-I or Late stage of LIHC. The first column is CpG site (Probe ID associated with CpG site) and in second column methylation level of corresponding CpG site in terms of methylation Beta value in a particular number of patients. For more information please click Help.

Submit csv file in which each number represents the methylation beta value obtained from methylation array intensity data of the subject:



   Example csv file    Choose SVM threshold:                  SVM threshold is required for prediction. Moving the threshold value in either direction (positive or negative) will lead to increase in probability of correct prediction in that direction