shinyGEO

shinyGEO performs differential expression and survival analyses of gene expression datasets retrieved from the Gene Expression Omnibus (GEO) to assess gene-level changes and prognostic associations.

Key Features:

• Direct Data Access: Downloads gene expression datasets directly from the Gene Expression Omnibus (GEO).
• Single-gene Evaluation: Enables focused analysis and evaluation of individual genes within specific GEO datasets.
• Differential Expression Analysis: Identifies genes with significant expression changes between experimental conditions.
• Survival Analysis: Assesses prognostic associations between gene expression and survival, including applications in cancer.
• Customized Graphics and Sample Selection: Generates tailored visualizations and allows selection of specific samples for analysis.
• Data Export and R Code Generation: Exports analysis data and generates R code to support reproducibility.

Scientific Applications:

• Cancer biomarker and prognostic evaluation: Evaluates the prognostic value of gene expression in cancer cohorts from GEO.
• Differential expression studies: Identifies differentially expressed genes involved in biological processes and genetic diseases.
• Single-gene investigations: Facilitates targeted investigation of individual gene expression patterns across GEO datasets.

Methodology:

Retrieves gene expression datasets from GEO and performs differential expression analysis and survival analysis, with options to export data and generate R code.