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Jul 11, 2019 · The ssGSEA method computes the enrichment score of a given gene set for a single sample. The ssGSEA method and the original GSEA method are similar [ 7 ], but they use different gene score values. In the original GSEA method, gene score values are usually fold change of different contexts.

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Dec 12, 2018 · Unsupervised clustering represents one of the most widely applied methods in analysis of high-throughput ‘omics data. A variety of unsupervised model-based or parametric clustering methods and non-parametric clustering methods have been proposed for RNA-seq count data, most of which perform well for large samples, e.g. N ≥ 500. A common issue when analyzing limited samples of RNA-seq count ...

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Several single sample gene-set enrichment analysis methods have been introduced to score samples against gene expression signatures, such as ssGSEA, GSVA...ISCB - International Society for Computational Biology. Shuhua Fu, University of Iowa, United States; Yingke Ma, University of Iowa, United States; Hui Yao, Peking Union Medical College, Beijing 100193, China, China

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This page describes the file formats that cancer study data should assume in order to be successfully imported into the database. Unless otherwise noted, all data files are in tabular-TSV (tab separated value) format and have an associated metadata file which is in a multiline record format.

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The biplot shows the scores of the samples (black coordinate system) and the scaled loadings of the input variables (green coordinate system) in the subspace of the first two principal components. (c) Cytokines and chemokines released from HUVECs were measured by multiplex-ELISAs after exposure to supernatants of irradiated HCC1937 cells for 4 ...

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