Table 1 Overview of the four study cohorts used in this study
Dataset | Title of study | Sample description | Platform | Total number of samples | Number of tumour samples | Number of normal samples | BCR events | Tool used | References |
|---|---|---|---|---|---|---|---|---|---|
Clariom D | Gene expression analysis reveals a 5-gene signature for progression-free survival in prostate cancer | Benign and matched prostate cancer tissue was obtained using radical prostatectomy specimens from nine patients | Affymetrix Clariom D Human micro-array | 18 | 9 | 9 | NA | EventPointer | Romero et al. [21] |
TCGA-PRAD | Prostate Adenocarcinoma (The Cancer Genome Atlas) | Surgical resection biospecimens were collected from patients diagnosed with prostate adenocarcinoma, and had not received prior treatment for their disease | Illumina HiSeq 2000 | 541 | 489 | 52 | 67 | SpliceSeq | Ryan et al. [20] |
PRJEB2449 | RNA-seq analysis of prostate cancer in the Chinese population identifies recurrent gene fusions, cancer-associated long noncoding RNAs and aberrant alternative splicings | Prostate cancer and matched adjacent normal tissues were obtained from patients diagnosed with prostate cancer | Illumina HiSeq 2000 | 28 | 14 | 14 | NA | rMATS | Shen et al. [19] |
GSE107299 | The Proteogenomic Landscape of Curable Prostate Cancer | Prostate tumours obtained from patients underwent either image-guided radiotherapy or radical prostatectomy | Affymetrix Human Transcriptome Array 2.0 (HTA 2.0) (Batch 2) | 61 | 61 | NA | 17 | EventPointer | Romero et al. [21] |