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Shambhala: a platform-agnostic data harmonizer for gene expression data

BMC bioinformatics. 2019-02; 
Nicolas Borisov, Irina Shabalina, Victor Tkachev, Maxim Sorokin, Andrew Garazha, Andrey Pulin, Ilya I Eremin, Anton Buzdin
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Oligo pool … When selecting the optimal auxiliary calibration dataset (P0) for Shambhala implementation, we found that our previous experimental dataset including 39 human gene expression profiles obtained using CustomArray microchip platform (CustomArray, USA) showed the best … Get A Quote

摘要

background: 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 multiple datasets into the universal form suitable for further comparisons. Shambhala harmonization is based on the calibration of gene expression profiles using the auxiliary standardization dataset. Each profile is transf... More

关键词

Comparison of multiple datasets, Gene expression, Harmonization of transcriptional profiles, Microarray hybridization, Next-generation sequencing, Transcriptome