Puchala W, Burdukiewicz M, Kistowski M, Dabrowska KA, Badaczewska-Dawid AE, Cysewski D and Dadlez M (2019). HaDeX: Analysis and Visualisation of Hydrogen/Deuterium Exchange Mass Spectrometry Data. R package version 1.0.
This work is supported by Foundation of Polish Science (TEAM TECH CORE FACILITY/2016-2/2 Mass Spectrometry of Biopharmaceuticals - improved methodologies for qualitative, quantitative and structural characterization of drugs, proteinaceous drug targets and diagnostic molecules).
This function plots the change in the uncertainty of deuteration levels as a function of incubation time. The uncertainty is averaged over all peptides available at a given time point in a selected state. This chart has a double function: firstly, it allows checking if the measurement uncertainty is decreasing over time (which is the expected behaviour) and the second one helps to plan the appropriate incubation length for the tested protein (whether we obtain the desired data reliability values).
This table was adapted from the HDX Data Summary (Masson, G.R., Burke, J.E., Ahn, N.G., Anand, G.S., Borchers, C., Brier, S., Bou-Assaf, G.M., Engen, J.R., Englander, S.W., Faber, J., et al. (2019). Recommendations for performing, interpreting and reporting hydrogen deuterium exchange mass spectrometry (HDX-MS) experiments. Nat Methods 16, 595–602).
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