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Translational control in infection biology: riboproteogenomics of bacterial pathogens

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Publications

Use of Hybrid Data-Dependent and -Independent Acquisition Spectral Libraries Empowers Dual-Proteome Profiling

Author(s): Patrick Willems, Ursula Fels, An Staes, Kris Gevaert, Petra Van Damme
Published in: Journal of Proteome Research, Issue 20/2, 2021, Page(s) 1165-1177, ISSN 1535-3893
DOI: 10.1021/acs.jproteome.0c00350

Lost and Found: Re-searching and Re-scoring Proteomics Data Aids Genome Annotation and Improves Proteome Coverage

Author(s): Patrick Willems, Igor Fijalkowski, Petra Van Damme
Published in: mSystems, Issue 5/5, 2020, ISSN 2379-5077
DOI: 10.1128/msystems.00833-20

Keeping in Touch with Type-III Secretion System Effectors: Mass Spectrometry-Based Proteomics to Study Effector–Host Protein–Protein Interactions

Author(s): Margaux De Meyer, Joren De Ryck, Sofie Goormachtig, Petra Van Damme
Published in: International Journal of Molecular Sciences, Issue 21/18, 2020, Page(s) 6891, ISSN 1422-0067
DOI: 10.3390/ijms21186891

Establishment of Proximity-dependent Biotinylation Approaches in Different Plant Model Systems

Author(s): Deepanksha Arora, Nikolaj B. Abel, Chen Liu, Petra Van Damme, Klaas Yperman, Dominique Eeckhout, Lam Dai Vu, Jie Wang, Anna Tornkvist, Francis Impens, Barbara Korbei, Jelle Van Leene, Alain Goossens, Geert De Jaeger, Thomas Ott, Panagiotis Nikolaou Moschou, Daniel Van Damme
Published in: The Plant Cell, 2020, Page(s) tpc.00235.2020, ISSN 1040-4651
DOI: 10.1105/tpc.20.00235

PROTEOFORMER 2.0: further developments in the ribosome profiling-assisted proteogenomic hunt for new proteoforms

Author(s): Steven Verbruggen, Elvis Ndah, Wim Van Criekinge, Siegfried Gessulat, Bernhard Kuster, Mathias Wilhelm, Petra Van Damme, Gerben Menschaert
Published in: Molecular & Cellular Proteomics, 2019, Page(s) mcp.RA118.001218, ISSN 1535-9476
DOI: 10.1074/mcp.ra118.001218

Bacterial riboproteogenomics: the era of N-terminal proteoform existence revealed

Author(s): Daria Fijalkowska, Igor Fijalkowski, Patrick Willems, Petra Van Damme
Published in: FEMS Microbiology Reviews, 2020, ISSN 1574-6976
DOI: 10.1093/femsre/fuaa013

Bacterial Genetic Engineering by Means of Recombineering for Reverse Genetics

Author(s): Ursula Fels, Kris Gevaert, Petra Van Damme
Published in: Frontiers in Microbiology, Issue 11, 2020, ISSN 1664-302X
DOI: 10.3389/fmicb.2020.548410

The use of hybrid data-dependent and -independent acquisition spectral libraries empower dual-proteome profiling

Author(s): Patrick Willems, Ursula Fels, An Staes, Kris Gevaert, Petra Van Damme
Published in: bioRxiv, 2020
DOI: 10.1101/2020.05.24.113340

Lost and found: re-searching and re-scoring proteomics data aids the discovery of bacterial proteins and improves proteome coverage

Author(s): Patrick Willems, Igor Fijalkowski, Petra Van Damme
Published in: bioRxiv, 2019
DOI: 10.1101/2019.12.18.881375

Establishment of Proximity-dependent Biotinylation Approaches in Different Plant Model Systems

Author(s): Deepanksha Arora, Nikolaj B. Abel, Chen Liu, Petra Van Damme, Klaas Yperman, Lam Dai Vu, Jie Wang, Anna Tornkvist, Francis Impens, Barbara Korbei, Dominique Eeckhout, Jelle Van Leene, VAlain Goossens, Geert De Jaeger,Thomas Ott, Panagiotis Moschou, Daniël Van Damme
Published in: bioRxiv, 2020
DOI: 10.1101/701425