normal-tissue-expression-for-gene

To retrieve normal tissue gene expression from GTEx, run the script with a valid gene symbol and output directory. The workflow resolves the gene to a canonical GENCODE ID, fetches median tissue expression, computes log2(TPM+1), and outputs a tissue-level table, summary text, TSV, and barplots.

GTEx tissue expression classification categorizes a gene's cross-tissue distribution into universally-expressed, tissue-specific, mixed, non-expressed, or no-data based on normalized log2(TPM+1) values. This helps determine whether a gene's expression pattern is broad or restricted to specific tissues.

Yes, this workflow generates publication-quality barplots in both PNG and PDF formats for gene expression analysis. It uses matplotlib and pandas to visualize cross-tissue distribution and outputs deterministic artifacts suitable for downstream reporting.

Yes, GTEx API access is required to retrieve tissue-level expression data. The workflow depends on the requests library to query the API for median tissue expression values, which are then normalized and classified into expression pattern categories.

The best way to analyze cross-tissue expression distribution is using a workflow that resolves the gene to a canonical GENCODE ID, normalizes GTEx median expression data to log2(TPM+1), classifies the expression pattern, and produces a comprehensive report with tables and barplots.

GTEx gene expression queries return no data when the input gene symbol cannot be resolved to a canonical GENCODE ID or lacks tissue-level expression records. The workflow classifies such cases as no-data or non-expressed in the summary output.