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While the identification of the genus Achromobacte r has become feasible using MALDI-TOF, allowing us to distinguish it from other non-fermentative bacteria, species identification is still challenging due to the limitations of the MALDI-TOF database and the non-extensive availability of sequencing methods [33]

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However, even with this stringent cutoff, dDIA on average correctly identified and localized 143 phosphorylation sites, which was one-third more than DDA (Supplementary Fig