MassIVE MSV000089280

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Multimodal measurement of the transcriptome and proteome in single cells using nanoSPLITS

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Description

Single-cell and pooled cell proteomic data from alveolar type II epithelial cell line (C10) and axillary lymph node cell line (SVEC). Cells were sorted using cellenONE onto several nanoSPLITS chips. Cell lysates were then split for parallel RNAseq and proteomic analysis. For the proteomic sample prep all steps utilized the nanoPOTS sample handling robot. Lysates were reduced, treated with IAA, digested overnight with trypsin/Lys-C at 37C, and vacuum dried / stored at -20C. LC-MS/MS data was acquired using TIFF DDA methodology on a Thermo Tribrid mass spectrometer. Data was searched using FragPipe version 17.1 before downstream analysis in R. [doi:10.25345/C5VH5CN69] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: nanoPOTS ; nanoSPLITS ; single-cell ; multiomics ; multimodal ; scRNAseq ; scProteomics

Contact

Principal Investigators:
(in alphabetical order) 		Ying Zhu, Pacific Northwest National Laboratory, United States
Submitting User: alchemistmatt

Publications

James M. Fulcher, Lye Meng Markillie, Hugh D. Mitchell, Sarah M. Williams, Kristin M. Engbrecht, Ronald J. Moore, Joshua Cantlon-Bruce, Johannes W. Bagnoli, Anjali Seth, Ljiljana Paša-Toli?, Ying Zhu.
Parallel measurement of transcriptomes and proteomes from same single cells using nanodroplet splitting.
bioRxiv. Epub 2022 May 18. doi: https://doi.org/10.1101/2022.05.17.492137.

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