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Harmonization techniques make different gene expression profiles and their sets compatible and ready for comparisons. Here we present a new bioinformatic tool termed Shambhala for harmonization of multiple human gene expression datasets obtained using different experimental methods and platforms of microarray hybridization and RNA sequencing. Results: Unlike previously published methods enabling good quality data harmonization for only two datasets, Shambhala allows conversion of multipledoi:10.1186/s12859-019-2641-8 fatcat:eldsaomt3vcylestzlm7wfvoia