De Novo Sequencing of Nonribosomal Peptides. - Nuno Bandeira; Julio Ng; Dario Meluzzi; Roger G. Linington; Pieter C. Dorrestein; Pavel A. Pevzner (RECOMB, 2008)

Multiplex De Novo Sequencing of Peptide Antibiotics. - Hosein Mohimani; Wei-Ting Liu; Yu-Liang Yang; Susana P. Gaudêncio; William Fenical; Pieter C. Dorrestein; Pavel A. Pevzner (J. Comput. Biol., 2011)

Pep2Path: Automated Mass Spectrometry-Guided Genome Mining of Peptidic Natural Products. - Marnix H. Medema; Yared Paalvast; Don D. Nguyen; Alexey Melnik; Pieter C. Dorrestein; Eriko Takano; Rainer Breitling (PLoS Comput. Biol., 2014)

Computational Metabolomics: Identification, Interpretation, Imaging (Dagstuhl Seminar 17491). - Theodore Alexandrov; Sebastian Böcker; Pieter C. Dorrestein; Emma Schymanski (Dagstuhl Reports, 2017)

Propagating annotations of molecular networks using in silico fragmentation. - Ricardo Roberto da Silva; Mingxun Wang 001; Louis-Félix Nothias; Justin J. J. van der Hooft; Andrés Mauricio Caraballo-Rodríguez; Evan Fox; Marcy J. Balunas; Jonathan L. Klassen; Norberto Peporine Lopes; Pieter C. Dorrestein (PLoS Comput. Biol., 2018)

De Novo Peptide Sequencing Reveals a Vast Cyclopeptidome in Human Gut and Other Environments. - Bahar Behsaz; Hosein Mohimani; Alexey A. Gurevich; Andrey D. Prjibelski; Mark F. Fisher; Larry Smarr; Pieter C. Dorrestein; Joshua S. Mylne; Pavel A. Pevzner (RECOMB, 2019)

Predicting proteome allocation, overflow metabolism, and metal requirements in a model acetogen. - Joanne K. Liu; Colton J. Lloyd; Mahmoud M. Al-Bassam; Ali Ebrahim; Ji-Nu Kim; Connor A. Olson; Alexander Aksenov; Pieter C. Dorrestein; Karsten Zengler (PLoS Comput. Biol., 2019)

Database-independent molecular formula annotation using Gibbs sampling through ZODIAC. - Marcus Ludwig; Louis-Félix Nothias; Kai Dührkop; Irina Koester; Markus Fleischauer; Martin A. Hoffmann; Daniel Petras; Fernando Vargas; Mustafa Morsy; Lihini Aluwihare; Pieter C. Dorrestein; Sebastian Böcker (Nat. Mach. Intell., 2020)

Publisher Correction: Database-independent molecular formula annotation using Gibbs sampling through ZODIAC. - Marcus Ludwig; Louis-Félix Nothias; Kai Dührkop; Irina Koester; Markus Fleischauer; Martin A. Hoffmann; Daniel Petras; Fernando Vargas; Mustafa Morsy; Lihini Aluwihare; Pieter C. Dorrestein; Sebastian Böcker (Nat. Mach. Intell., 2020)

Improving annotation propagation on molecular networks through random walks: introducing ChemWalker. - Tiago Cabral Borelli; Gabriel Santos Arini; Luís G. P. Feitosa; Pieter C. Dorrestein; Norberto Peporine Lopes; Ricardo Roberto da Silva (Bioinform., 2023)

DeepSAT: Learning Molecular Structures from Nuclear Magnetic Resonance Data. - Hyun Woo Kim; Chen Zhang 022; Raphael Reher; Mingxun Wang 001; Kelsey L. Alexander; Louis-Félix Nothias; Yoo Kyong Han; Hyeji Shin; Ki Yong Lee; Kyu Hyeong Lee; Myeong Ji Kim; Pieter C. Dorrestein; et al. (J. Cheminformatics, 2023)