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. 2023 Apr 3;20(5):714–722. doi: 10.1038/s41592-023-01830-1

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© The Author(s) 2023

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Extended Data Fig. 6 — (a) Percent data completeness tallied for peptides and proteins quantified across twenty shotgun and twenty pSCoPE experiments, faceted by priority tier. n = 175 and 186 single-cells for the prioritized and shotgun analysis methods, respectively. (b) Number of peptides and proteins per single-cell sample across twenty shotgun and twenty pSCoPE experiments. n = 175 and 186 single-cells for the prioritized and shotgun analysis methods, respectively. (c) Illustration of precursor-intensity-dependent MS2 fill times for precursors on the top priority tier. Percent data completeness contrast for precursors which were allotted increased fill times in the pSCoPE analyses. n = 175 and 186 single-cells for the prioritized and shotgun analysis methods, respectively. Boxplot whiskers display the minimum and maximum values within 1.5 times the interquartile range of the 25th and 75th percentiles, respectively; the 25th percentile, median, and 75th percentile are also featured.