Bioinformatics Seminars

Bioinformatics Seminar

Time: 11AM
Venue: Zoom Webinar

9 November 2021

Data integration of gene expression studies using pseudo-replicates of pseudo-samples and negative control genes

Ramyar Molania
WEHI Bioinformatics

Data integration of gene expression studies is highly desirable to increase statistical power of the analysis by increasing the number of samples. These datasets are extremely valuable to study different biological subpopulations of very heterogeneous diseases such as cancer. We use our recently developed strategy, pseudo-replicates of pseudo-samples (PRPS), to deploy the Removing Unwanted Variation III (RUV-III) method for data integration of gene expression studies. In this talk, I will show the effectiveness of our approach by integrating gene expression studies from a range of gene expression platforms including Nanostring nCounter (two studies, approx 2500 samples), Microarray (20 studies, approx 5000 samples), bulk RNA-seq (3 studies, approx 5000 samples) and a single cell RNA-seq data. I will also show that the integration of microarray and bulk-RNA-seq datasets.

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