Reference: Bhalla, S., Kaur, H., Dhall, A., Raghava, GPS. Prediction and Analysis of Skin Cancer Progression using Genomics Profiles of Patients. Sci Rep 9, 15790 (2019) doi:10.1038/s41598-019-52134-4. https://doi.org/10.1038/s41598-019-52134-4

Predicting Cancer state of SKCM sample (Primary or Metastatic tumor) using Methylation beta values

This tool allows the users to submit beta values of methylated genes and predict the the cancer status i.e. metastatic or primary tumor employing methylation expression data of signature genes, resulting from analysis of methyl-seq data of Skin cutaneous melanoma(SKCM) from TCGA dataset obtained from TCGA assembler-2. This method requires beta values of 38 genes in each patient to predict patient's status. The first column is methyl gene and in second column expression of corresponding gene in terms of beta value in a particular number of patients. For more information please click Help.

Submit csv file in which each number represents the beta value derived from genes expression of each subject derived from methyl-seq data of the SKCM:



   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