Overview of molecular data repositories and GEO Data mining

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This workshop will  cover the Overview of NIH supported data repositories with specific focus on Gene Expression Omnibus (GEO) repository. We will learn how to find high throughput gene expression studies - bulk RNA-seq/ scRNA-seq /microarray from GEO, retrieve gene expression count data, and generate a list of differentially expressed genes (DEG) between two conditions.  We will use a variety of bioinformatics tools such as R shiny app iDEP, Correlation engine, GEO2R, etc. Additionally, best practices and guidelines on how to submit your own high throughput gene expression data to GEO will also be discussed.

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