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MuMu: a sample multiplexing protocol for droplet-based simultaneous single nuclei RNA- and ATAC-seq systems

Li, Z.; Haydar, T. F.

2025-03-25 molecular biology
10.1101/2024.11.27.625728 bioRxiv
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Sample multiplexing is a common approach to reduce experimental cost and technical batch effect. Here, we present a protocol that for the first time allows the pooling of single nuclei from multiple biological samples prior to performing simultaneous single nuclei RNA-seq and ATAC-seq, which we term Multiplexed Multiome (MuMu). We describe steps for assembling the custom Tn5 transposome, performing the transposition reaction, nuclei pooling, sequencing library preparation, and sequencing data pre-processing. This protocol will greatly reduce the cost of sn-Multiome. Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=163 HEIGHT=200 SRC="FIGDIR/small/625728v2_ufig1.gif" ALT="Figure 1"> View larger version (40K): org.highwire.dtl.DTLVardef@19d7962org.highwire.dtl.DTLVardef@18c1c04org.highwire.dtl.DTLVardef@18355a9org.highwire.dtl.DTLVardef@16cdb6f_HPS_FORMAT_FIGEXP M_FIG C_FIG

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