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bioRxiv · 10.1101/463331

adductomicsR: A package for detection and quantification of protein adducts from mass spectra of tryptic digests

Hayes, J. L.·Edmands, W. M.·Yano, Y.·Grigoryan, H.·Schiffman, C.·Dudoit, S.·Rappaport, S.
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Abstract

SummaryLiquid chromatography-high resolution mass spectrometry (LC-HRMS) has been used to establish a method, referred to as adductomics, for characterisation of putative protein adducts at selected loci in human serum albumin (HSA). Applications of this method have been limited by the lack of software for untargeted analysis of modified peptides in protein digests. Here we present adductomicsR, an open-source R package for processing LC-HRMS data from analysis of adducted HSA peptides. The software interrogates mass spectra to correct for retention-time drift, and to discover and quantify putative adducts along with those for a housekeeping peptide and internal standard.\n\nAvailability and implementationadductomicsR is written in R and publicly available at https://github.com/JosieLHayes/adductomicsR, which includes a vignette with example data.\n\nSupplementary informationmzXML files for the vignette and test dataset are available in an associated data package adductData (https://github.com/JosieLHayes/adductData).\n\nContactjosie.hayes@berkeley.edu\n\nIssue SectionAPPLICATIONS NOTE

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Hayes, J. L., Edmands, W. M., Yano, Y., Grigoryan, H., Schiffman, C., Dudoit, S., Rappaport, S.. 2018-11-06. adductomicsR: A package for detection and quantification of protein adducts from mass spectra of tryptic digests. https://doi.org/10.1101/463331

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