Abstract | ||
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Detection of cancer-related phenotypic biomarkers is crucial for clinical research. Traditional pipeline consists of two stages, i.e., candidates are first selected to be significantly differentially expressed between tumour-adjacent and tumour conditions, and then later are filtered by Phenotype-Targeted tests (PT tests). Such two-phase process has low-detection power. In this paper, two-variate PT test, which jointly considers tumour-adjacent data and tumour data, is adopted to strengthen the detection power. We conduct a systematic investigation on the three implementations of two-variate PT tests for detecting phenotypic biomarkers in three types of cancers, and provide a practical guideline for the usage of the two-variate PT tests. Experimental analysis indicates that the two-variate PT tests achieve stronger detection power than traditional methods. The tumour-adjacent data provides complementary information to the discriminant analysis, and Fisher discriminant analysis is able to best implement two-variate PT test for detecting phenotypic biomarkers in cancers. |
Year | DOI | Venue |
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2020 | 10.1504/IJDMB.2020.109501 | INTERNATIONAL JOURNAL OF DATA MINING AND BIOINFORMATICS |
Keywords | DocType | Volume |
two-variate phenotype-targeted test, phenotypic biomarkers, breast cancer, lung cancer, thyroid cancer, body mass index, overall survival time, pathologic stage, microarray expression data, RNA-seq expression data | Journal | 24 |
Issue | ISSN | Citations |
1 | 1748-5673 | 0 |
PageRank | References | Authors |
0.34 | 0 | 3 |
Name | Order | Citations | PageRank |
---|---|---|---|
Jin-Xiong Lv | 1 | 0 | 1.69 |
Shikui Tu | 2 | 39 | 14.25 |
Lei Xu | 3 | 3590 | 387.32 |