MPRAscore: robust and non-parametric analysis of massively parallel reporter assays
Research output: Contribution to journal › Article
MOTIVATION: Massively parallel reporter assays (MPRA) enable systematic screening of DNA sequence variants for effects on transcriptional activity. However, convenient analysis tools are still needed. RESULTS: We introduce MPRAscore, a novel tool to infer allele-specific effects on transcription from MPRA data. MPRAscore uses a weighted, variance-regularized method to calculate variant effect sizes robustly, and a permutation approach to test for significance without assuming normality or independence. AVAILABILITY AND IMPLEMENTATION: Source code (C++), precompiled binaries and data used in the paper at https://github.com/abhisheknrl/MPRAscore and https://www.ncbi.nlm.nih.gov/bioproject/PRJNA554195. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
|Research areas and keywords||
Subject classification (UKÄ) – MANDATORY
|Number of pages||3|
|Journal||Bioinformatics (Oxford, England)|
|Publication status||Published - 2019 Dec 15|