| Autor: |
Cody Chiuzan, Aaron T. Griffin, Lukas Vlahos, Andrea Califano |
| Rok vydání: |
2021 |
| Předmět: |
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| DOI: |
10.1101/2021.10.02.462873 |
| Popis: |
Nonparametric analytical Rank-based Enrichment Analysis (NaRnEA) is a novel gene set analysis method which leverages an analytical null model derived under the Principle of Maximum Entropy. NaRnEA critically improves over two widely used methods – Gene Set Enrichment Analysis (GSEA) and analytical Rank-based Enrichment Analysis (aREA) – as shown by differential activity measurement of ~2,500 transcriptional regulatory proteins across three cohorts in The Cancer Genome Atlas (TCGA) based on the enrichment of their transcriptional targets in differentially expressed genes. Phenotype-matched proteomic data from the Clinical Proteomic Tumor Analysis Consortium (CPTAC) was used to evaluate measurement accuracy. We show that the sample-shuffling empirical null models leveraged by GSEA and aREA are overly conservative, a shortcoming that is critically addressed by NaRnEA’s optimal analytical null model. |
| Databáze: |
OpenAIRE |
| Externí odkaz: |
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