MassIVE MSV000090828

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Multimodal measurement of the transcriptome and proteome in G2/M arrested single cells using nanoSPLITS

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Description

Single-cell proteomic data from RO-3306 treated alveolar type II epithelial cells (C10) and untreated C10 cells. Cells were sorted using cellenONE onto several nanoSPLITS chips. Cell lysates were then split for parallel RNAseq and proteomic analysis. For proteomics recovery experiment where both chips were analyzed by proteomics, 10 C10 cells were pooled onto a single cell before splitting. 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 18.0 before downstream analysis in R. [doi:10.25345/C5WP9TB85] [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

Fulcher JM, Markillie LM, Mitchell HD, Williams SM, Engbrecht KM, Degnan DJ, Bramer LM, Moore RJ, Chrisler WB, Cantlon-Bruce J, Bagnoli JW, Qian WJ, Seth A, Paša-Toli? L, Zhu Y.
Parallel measurement of transcriptomes and proteomes from same single cells using nanodroplet splitting.
Nat Commun. 2024 Dec 5;15(1):10614. Epub 2024 Dec 5.

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