Absolute protein abundance quantification of autophagy factors in human cells. (A) Example in-gel fluorescence containing the quantification standards (HaloTag + cell lysate) and ATG13 protein. (B) Histogram of flow cytometry measurements depicting the relative protein abundances of U2OS (negative control), and two clones of cells expressing Halo-ATG2A and Halo-WIPI2. (C) Corrected protein abundance quantification of the tagged autophagy proteins with in-gel fluorescence and flow cytometry (N = 3, mean ± SD including error propagation). (D) Graph showing the correlation between protein abundance measured by flow cytometry compared to in-gel fluorescence. Source data are available for this figure: SourceData F2.