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  • Journal article

  • Standard Flow Multiplexed Proteomics (SFloMPro) – An Accessible and Cost-Effective Alternative to NanoLC Workflows

    • Authors : Jenkins, Conor; Orsburn, Ben (2020)

  • Describing a method for performing multiplexed proteomics without the use of NanoLC by using offline fractionation of labeled peptides followed by rapid “standard flow” HPLC gradient LC-MS/MS. Standard Flow Multiplexed Proteomics (SFloMPro) enables high coverage quantitative proteomics of up to 16 mammalian samples in about 24 hours. In this study, we compare NanoLC and SFloMPro analysis of fractionated samples. Our results demonstrate that comparable data is...
  • Journal article

  • In silico approach toward the identification of unique peptides from viral protein infection: Application to COVID-19

    • Authors : Orsburn, Benjamin C; Jenkins, Conor; Miller, Sierra M (2020)

  • We describe a method for rapid in silico selection of diagnostic peptides from newly described viral pathogens and applied this approach to SARS-CoV-2/COVID-19. This approach is multi-tiered, beginning with compiling the theoretical protein sequences from genomic derived data. In the case of SARS-CoV-2 we begin with 496 peptides that would be produced by proteolytic digestion of the viral proteins. To eliminate peptides that would cause cross-reactivity ...
  • Journal article

  • In silico approach toward the identification of unique peptides from viral protein infection: Application to COVID-19

    • Authors : Orsburn, Benjamin C; Jenkins, Conor; Miller, Sierra M (2020)

  • We describe a method for rapid in silico selection of diagnostic peptides from newly described viral pathogens and applied this approach to SARS-CoV-2/COVID-19. This approach is multi-tiered, beginning with compiling the theoretical protein sequences from genomic derived data. In the case of SARS-CoV-2 we begin with 496 peptides that would be produced by proteolytic digestion of the viral proteins. To eliminate peptides that would cause cross-reactivity ...
  • Journal article

  • BoxCar Assisted MS Fragmentation (BAMF)

    • Authors : Jenkins, Conor; Orsburn, Ben (2019)

  • A recent study described the utilization of complex quadrupole isolation schemes to reduce high abundance ion saturation in Orbitrap systems. The BoxCar technique effectively democratizes MS1 scans by restricting high abundance ions from consuming as much space in the trap. This restriction allows lower abundance ions more acquisition time and can increase the signal to noise by a full order of magnitude. While effective at the MS1 level, BoxCar...