Design of single-cell proteomics experiments | Harrison Specht | SCP2019

Presentation by Harrison Specht at the 2nd single-cell proteomics conference https://single-cell.net Experimental design and sample preparation for single-cell proteomics. All workshop videos http://workshop2019.single-cell.net. See more at: http://YouTube.single-cell.net & https://slavovlab.net.

Harrison Specht discusses how to design SCoPE2 (Single-Cell ProteOmics by Mass Spectrometry 2) experiments such that data quality can be rigorously assessed and experimental failure can be specifically diagnosed. This includes built-in quality control metrics for establishing background noise, evaluating measurement consistency, randomizing samples, and benchmarking quantification by using fluorescent proteins or bulk proteomics measurements.

Relevant publications for further reading:

Specht H, Emmott E, Koller T, Slavov N (2019)
High-throughput single-cell proteomics quantifies the emergence of macrophage heterogeneity, bioRxiv DOI: https://doi.org/10.1101/665307

Specht H, Harmange G, Perlman DH, Emmott E, Niziolek Z, Budnik B, Slavov N. (2018)
Automated sample preparation for high-throughput single-cell proteomics
bioRxiv DOI: http://dx.doi.org/10.1101/399774

Specht H, and Slavov N. (2018)
Transformative opportunities for single cell proteomics
Journal of Proteome Research DOI: https://doi.org/10.1021/acs.jproteome...

Budnik B., Levy E., Harmange G., Slavov N. (2018)
SCoPE-MS: mass-spectrometry of single mammalian cells quantifies proteome heterogeneity during cell differentiation
Genome Biology DOI: https://doi.org/10.1186/s13059-018-15...