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gtex_enrichment

This is a project for testing expression enrichment in tissues from the whole body (tissue samples from GTEx), starting with a query of a gene set of interest.

Data

Raw data was downloaded from the GTEx portal.

  • Sample annotations metadata -- GTEx_Analysis_v8_Annotations_SampleAttributesDS.txt
  • RNASeq data -- GTEx_Analysis_2017-06-05_v8_RNASeQCv1.1.9_gene_tpm.gct.gz

Expression data was extracted and processed with cmapPy in python2.7

Downstream processing was performed using python3 and pandas, numpy and scipy.

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