2019

PROTEOFORMER 2.0 : further developments in the ribosome profiling-assisted proteogenomic hunt for new proteoforms
S. Verbruggen, E. Ndah, W. Van Criekinge, S. Gessulat, B. Kuster, M. Wilhelm, G. Menschaert and P. Van Damme
(2019) MOLECULAR & CELLULAR PROTEOMICS, 18,

Proteomics Standards Initiative extended FASTA format
P. Binz, J. Shofstahl, J. Vizcaíno, H. Barsnes, R. Chalkley, G. Menschaert, E. Alpi, K. Clauser, J. Eng, L. Lane, S. Seymour, L. Hernández Sánchez, G. Mayer, M. Eisenacher, Y. Perez-Riverol, E. Kapp, L. Mendoza, P. Baker, A. Collins, T. Van Den Bossche and E. Deutsch
(2019) JOURNAL OF PROTEOME RESEARCH, 18,

Cost-effectiveness of SelectMDx for prostate cancer in four European countries : a comparative modeling study
T. Govers, D. Hessels, V. Vlaeminck-Guillem, B. Schmitz-Draeger, C. Stief, C. Martinez-Ballesteros, M. Ferro, A. Borque-Fernando, J. Rubio-Briones, J. Sedelaarll, W. Van Criekinge and J. Schalken
(2019) PROSTATE CANCER AND PROSTATIC DISEASES, 22,

A combined strategy of neuropeptide prediction and tandem mass spectrometry identifies evolutionarily conserved ancient neuropeptides in the sea anemone Nematostella vectensis
E. Hayakawa, H. Watanabe, G. Menschaert, T. Holstein, G. Baggerman and L. Schoofs
(2019) PLOS ONE, 14, e0215185

Multiple solvent elution, a method to counter the effects of coelution and ion suppression in LC-MS analysis in bottom up proteomics
H. Budamgunta, E. Maes, H. Willems, G. Menschaert, K. Schildermans, A. Kumar, K. Boonen and G. Baggerman
(2019) JOURNAL OF CHROMATOGRAPHY B-ANALYTICAL TECHNOLOGIES IN THE BIOMEDICAL AND LIFE SCIENCES, 1124,

Beyond genes : re-identifiability of proteomic data and its implications for personalized medicine
K. Boonen, K. Hens, G. Menschaert, G. Baggerman, D. Valkenborg and G. Ertaylan
(2019) GENES, 10, 682

MGMT promoter methylation cutoff with safety margin for selecting glioblastoma patients into trials omitting temozolomide : a pooled analysis of four clinical trials
M. Hegi, E. Genbrugge, T. Gorlia, R. Stupp, M. Gilbert, O. Chinot, L. Nabors, G. Jones, W. Van Criekinge, J. Straub and M. Weller
(2019) CLINICAL CANCER RESEARCH, 25,

Multicenter optimization and validation of a 2-gene mRNA urine test for detection of clinically significant prostate cancer before initial prostate biopsy
A. Haese, G. Trooskens, S. Steyaert, D. Hessels, M. Brawer, V. Vlaeminck-Guillem, A. Ruffion, D. Tilki, J. Schalken, J. Groskopf and W. Van Criekinge
(2019) JOURNAL OF UROLOGY, 202,

Clinically significant prostate cancer diagnosed using a urinary molecular biomarker-based risk score : two case reports
P. Minnee, D. Hessels, J. Schalken and W. Van Criekinge
(2019) BMC UROLOGY, 19, 124

DeepRibo : a neural network for precise gene annotation of prokaryotes by combining ribosome profiling signal and binding site patterns
J. Clauwaert, G. Menschaert and W. Waegeman
(2019) NUCLEIC ACIDS RESEARCH, 47, e36