CancerLSP
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.

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Dataset

Description

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Pre-processed methylation datasets used in the study

Methylation Data for Stage Classification

Training dataset for 21 methylation CpG sites in terms of beta values in range of 0 to 1. Download

Methylation Data for Stage Classification

Validation dataset for 21 methylation CpG sites in terms of beta values in range of 0 to 1. Download

Methylation Data for cancer vs normal Classification

Training dataset for 5 methylation CpG sites in terms of beta values in range of 0 to 1.Download

Methylation Data for cancer vs normal Classification

Validation dataset for 5 methylation CpG sites in terms of beta values in range of 0 to 1.Download

Methylation Data for Multiclass Classification

Training dataset for 33 methylation CpG sites in terms of beta values in range of 0 to 1.Download

Methylation Data for Multiclass Classification

Validation dataset for 33 methylation CpG sites in terms of beta values in range of 0 to 1.Download

Pre-processed RNA Expression datasets used in the study

RNA Expression Data for Stage Classification

Training dataset for 30RNA expression Transcripts with Z-score normalization.Download

RNA Expression Data for Stage Classification

Validation dataset for 30RNA expression Transcripts with Z-score normalization.Download

RNA Expression Data for cancer vs normal Classification

Training dataset for 5RNA expression Transcripts with Z-score normalization. Download

RNA Expression Data for cancer vs normal Classification

Validation dataset for 5 RNA expression Transcripts with Z-score normalization. Download

RNA Expression Data for Multiclass Classification

Training dataset for 5 RNA expression Transcripts with Z-score normalization.Download

RNA Expression Data for Multiclass Classification

Validation dataset for 5 RNA expression Transcripts with Z-score normalization. Download

Dataset for Hybrid model used in the study

Hybrid Model Dataset for Stage Classification

Training dataset for 51 Hybrid feature (30RNA transcripts + 21 methylation CpG sites) with Min-Max normalized values in range of 0 to 1.Download

Hybrid Model Dataset for Stage Classification

Validation dataset for 51 Hybrid feature (30RNA transcripts + 21 methylation CpG sites) with Min-Max normalized values in range of 0 to 1.Download

Complete Datasets without Normalization used in the study

RNA Expression Data

RNA Expression data for 60,483 RNA-transcripts in terms of Log2(FPKM) values. Download

Methylation Data

Methylation Data for 369221 CpG sites in terms of beta values. Download

Annotation file for using Gencodev22

Annotation file for 60,483 RNA transcripts using Gencodev22. Download

Clinical Information of samples

Clinical information of samples like Age, stage, Geneder, survival information etc. Download