Menschaert, Gerben

Deep Proteome Coverage Based on Ribosome Profiling Aids Mass Spectrometry-based Protein and Peptide Discovery and Provides Evidence of Alternative Translation Products and Near-cognate Translation Initiation Events*

Menschaert, G., Van Criekinge, W., Notelaers, T., Koch, A., Crappé, J., Gevaert, K., & Van Damme, P. (2013) · Molecular & Cellular Proteomics

Advanced Proteomics Techniques and ApplicationsRNA and protein synthesis mechanisms

Cited by 173

A proteogenomics approach integrating proteomics and ribosome profiling increases the efficiency of protein identification and enables the discovery of alternative translation start sites

Koch, A., Gawron, D., Steyaert, S., Ndah, E., Crappé, J., De Keulenaer, S., De Meester, E., Ma, M., Shen, B., Gevaert, K., et al. (2014) · PROTEOMICS

Advanced Proteomics Techniques and ApplicationsRNA and protein synthesis mechanisms

Cited by 76

Explainability in transformer models for functional genomics

Clauwaert, J., Menschaert, G., & Waegeman, W. (2021) · Briefings in Bioinformatics

Explainable Artificial Intelligence (XAI)Genomics and Chromatin Dynamics

Cited by 60

PROTEOFORMER 2.0: Further Developments in the Ribosome Profiling-assisted Proteogenomic Hunt for New Proteoforms

Verbruggen, S., Ndah, E., Van Criekinge, W., Gessulat, S., Kuster, B., Wilhelm, M., Van Damme, P., & Menschaert, G. (2019) · Molecular & Cellular Proteomics

Advanced Proteomics Techniques and ApplicationsRNA and protein synthesis mechanisms

Cited by 45

CpG Transformer for imputation of single-cell methylomes

De Waele, G., Clauwaert, J., Menschaert, G., & Waegeman, W. (2021) · Bioinformatics

Epigenetics and DNA MethylationSingle-cell and spatial transcriptomics

Cited by 37

CpG Transformer for imputation of single-cell methylomes

De Waele, G., Clauwaert, J., Menschaert, G., & Waegeman, W. (2022) · Bioinformatics

Epigenetics and DNA MethylationSingle-cell and spatial transcriptomics

Cited by 37

TIS Transformer: Remapping the Human Proteome Using Deep Learning

Clauwaert, J., Gupta, R., McVey, Z., & Menschaert, G. (2021) · NAR Genomics and Bioinformatics

RNA and protein synthesis mechanismsGenomics and Phylogenetic Studies

Cited by 26

TIS Transformer: remapping the human proteome using deep learning

Clauwaert, J., McVey, Z., Gupta, R., & Menschaert, G. (2023) · NAR Genomics and Bioinformatics

RNA and protein synthesis mechanismsGenomics and Phylogenetic Studies

Cited by 26

Pre-trained Maldi Transformers improve MALDI-TOF MS-based prediction

De Waele, G., Menschaert, G., Vandamme, P., & Waegeman, W. (2024) · Computers in Biology and Medicine

Bacterial Identification and Susceptibility TestingMass Spectrometry Techniques and Applications

Cited by 17