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XenoCell: classification of cellular barcodes in single cell experiments from xenograft samples

By Stefano Cheloni, Roman Hillje, Lucilla Luzi, Pier Giuseppe Pelicci, Elena Gatti

Posted 21 Jun 2019
bioRxiv DOI: 10.1101/679183

Single-cell sequencing technologies provide unprecedented opportunities to deconvolve the genomic, transcriptomic or epigenomic heterogeneity of complex biological systems. Its application in samples from xenografts of patient-derived biopsies (PDX), however, is limited by the presence in the analysed samples of a mixture of cells arising from the host and the graft. We have developed XenoCell, the first stand-alone pre-processing tool that performs fast and reliable classification of host and graft cellular barcodes. We show its application on a single cell dataset composed by human and mouse cells.

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