Publications
See a complete PubMed list of publications by Jesse G. Meyer, PhD.
Selected Key Publications
- Dickinson Q, Meyer JG. Positional SHAP (PoSHAP) for Interpretation of machine learning models trained from biological sequences. PLoS Comput Biol. 2022 Jan 28;18(1):e1009736.
- Meyer JG. Deep learning neural network tools for proteomics. Cell Rep Methods. 2021 May 17;1(2):100003.
- Cranney CW, Meyer JG. CsoDIAq Software for Direct Infusion Shotgun Proteome Analysis. Anal Chem. 2021 Sep 14;93(36):12312-12319.
- Dermit M, Peters-Clarke TM, Shishkova E, Meyer JG. Peptide Correlation Analysis (PeCorA) Reveals Differential Proteoform Regulation. J Proteome Res. 2021 Apr 2;20(4):1972-1980.
- Meyer JG, Niemi NM, Pagliarini DJ, Coon JJ. Quantitative shotgun proteome analysis by direct infusion. Nat Methods. 2020 Dec;17(12):1222-1228.
- Meyer JG, Liu S, Miller IJ, Coon JJ, Gitter A. Learning Drug Functions from Chemical Structures with Convolutional Neural Networks and Random Forests. J Chem Inf Model. 2019 Oct 28;59(10):4438-4449.
- Meyer JG, Softic S, Basisty N, Rardin MJ, Verdin E, Gibson BW, Ilkayeva O, Newgard CB, Kahn CR, Schilling B. Temporal dynamics of liver mitochondrial protein acetylation and succinylation and metabolites due to high fat diet and/or excess glucose or fructose. PLoS One. 2018 Dec 26;13(12):e0208973.
- Meyer JG, Mukkamalla S, Steen H, Nesvizhskii AI, Gibson BW, Schilling B. PIQED: automated identification and quantification of protein modifications from DIA-MS data. Nat Methods. 2017 Jun 29;14(7):646-647.
- Meyer JG, D'Souza AK, Sorensen DJ, Rardin MJ, Wolfe AJ, Gibson BW, Schilling B. Quantification of Lysine Acetylation and Succinylation Stoichiometry in Proteins Using Mass Spectrometric Data-Independent Acquisitions (SWATH). J Am Soc Mass Spectrom. 2016 Nov;27(11):1758-1771.
- Meyer JG, A Komives E. Charge state coalescence during electrospray ionization improves peptide identification by tandem mass spectrometry. J Am Soc Mass Spectrom. 2012 Aug;23(8):1390-9.