CancerTSP

Predicting Cancer Stage of Papillary Thyroid Carcinoma (PTC) from RNA expression Data

This tool allows the users to submit FPKM values of RNA transcripts and predict if the cancer patient has Early Stage cancer or Late Stage cancer using RNA expression data of 36 RNA transcripts , resulting from classification analysis of RNA-seq data of Papillary Thyroid Carcinoma (PTC) from TCGA data. This method requires FPKM values of 36 RNA transcripts in each patient to predict whether it’s in early or late stage of cancer. The first column is RNA transcript and in second column expression of corresponding RNA transcript in a particular number of patients. For more information please click Help.

Submit csv file in which each number represents the FPKM value derived from genomics data of each patient derived from RNAseq data of 36 RNA transcripts of the cancer patient. User can provide expression data for required 36 signature RNA transcripts or complete genes containing them. Here is a list of 36 RNA transcripts .

Example csv file

Choose SVM threshold:

SVM threshold is required for prediction. The user can change the threshold for less or more stringent results in terms of recall and specificity. The lower threshold will increase the recall but decrease the specificity and higher threshold will do the opposite to prediction outcomes. More Detail