GEO Data Mining and Submission - Online

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This workshop will 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 (disease state vs. normal, drug treatment vs. control, virus infection vs. mock treatment). We will use a variety of bioinformatics tools such as BioJupies, 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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