2023_Leduc_protocol.md

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default	Leduc et al, 2023	7	Leduc_et_al_2023	Data from the nPOP protocol paper demonstrating highly parallel single-cell sample preparation for mass spectrometry proteomics using plexDIA	Single-cell protein data

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Article: Leduc et al, 2023

• Peer-reviewed article: Leduc A, Luke Khoury, Joshua Cantlon, Slavov N. (2024) Massively parallel sample preparation for multiplexed single-cell proteomics using nPOP, Nature Protocols, doi: 10.1038/s41596-024-01033-8

Methods used:

• Single-cell proteomics: plexDIA, and pSCoPE
• Sample preparation: nPOP
• Data analysis package: QuantQC

Model systems: Cell lines, U-937 monocyte, WM-989 Melanoma, CPAFII PDAC

 

RAW Data{: .btn .fs-5 .mb-4 .mb-md-0 .mr-2 } Code{: .btn .fs-5 .mb-4 .mb-md-0 .mr-2 } Processed Data{: .btn .fs-5 .mb-4 .mb-md-0 .mr-2 }

 

 

Raw Data

• MassIVE Repository:

• plexDIA raw data

  • http: MSV000093494 -Spectral library for searching single cells
  • ftp:   MSV000093494

• pSCoPE raw data

  • http: MSV000094207
  • ftp:   MSV000094207

   

   

Processed Data from experiments benchmarking nPOP

• Processed Data

  • Processed single cell protein data (no imputation)
  • Meta data
  • Processed bulk data (no imputation)