2021

Spectral prediction features as a solution for the search space size problem in proteogenomics
S. Verbruggen, S. Gessulat, R. Gabriels, A. Matsaroki, H. Van de Voorde, B. Kuster, S. Degroeve, L. Martens, W. Van Criekinge, M. Wilhelm and G. Menschaert
(2021) MOLECULAR & CELLULAR PROTEOMICS, 20, 100076

Clinical use of the SelectMDx urinary-biomarker test with or without mpMRI in prostate cancer diagnosis : a prospective, multicenter study in biopsy-naive men
R. Hendriks, M. van der Leest, B. Israel, G. Hannink, A. YantiSetiasti, E. Cornel, C. Hulsbergen-van de Kaa, O. Klaver, J. Sedelaar, W. Van Criekinge, H. de Jong, P. Mulders, E. Crawford, J. Veltman, J. Schalken, J. Barentsz and I. van Oort
(2021) PROSTATE CANCER AND PROSTATIC DISEASES, 24,

Explainability in transformer models for functional genomics
J. Clauwaert, G. Menschaert and W. Waegeman
(2021) BRIEFINGS IN BIOINFORMATICS, 22, bbab060

The RNA Atlas expands the catalog of human non-coding RNAs
L. Lorenzi, H. Chiu, F. Avila Cobos, S. Gross, P. Volders, R. Cannoodt, J. Nuytens, K. Vanderheyden, J. Anckaert, S. Lefever, A. Tay, E. de Bony, W. Trypsteen, F. Gysens, M. Vromman, T. Goovaerts, T. Hansen, S. Kuersten, N. Nijs, T. Taghon, K. Vermaelen, K. Bracke, Y. Saeys, T. De Meyer, N. Deshpande, G. Anande, T. Chen, M. Wilkins, A. Unnikrishnan, K. De Preter, J. Kjems, J. Koster, G. Schroth, J. Vandesompele, P. Sumazin and P. Mestdagh
(2021) NATURE BIOTECHNOLOGY, 39,

A hypomorphic mutant of PHD domain protein male meiocytes death 1
B. Liu, C. Jin, N. De Storme, S. Schotte, C. Schindfessel, T. De Meyer and D. Geelen
(2021) GENES, 12, 516

Ion mobility coupled to a time-of-flight mass analyzer combined with fragment intensity predictions improves identification of classical bioactive peptides and small open reading frame-encoded peptides
M. Peeters, G. Baggerman, R. Gabriels, E. Pepermans, G. Menschaert and K. Boonen
(2021) FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY, 9, 720570

Single cell epigenetic visualization assay
S. Kint, W. Van Criekinge, L. Vandekerckhove, W. De Vos, K. Bomsztyk, D. Krause and O. Denisenko
(2021) NUCLEIC ACIDS RESEARCH, 49, e43

Evaluation of the new American Urological Association guidelines risk classification for hematuria
S. Woldu, C. Ng, R. Loo, J. Slezak, S. Jacobsen, W. Tan, J. Kelly, T. Lough, D. Darling, K. van Kessel, J. de Jong, W. Van Criekinge, S. Shariat, A. Hiar, S. Brown, S. Boorjian, D. Barocas, R. Svatek and Y. Lotan
(2021) JOURNAL OF UROLOGY, 205,

DNA methylation regulates transcription factor-specific neurodevelopmental but not sexually dimorphic gene expression dynamics in zebra finch telencephalon
J. Diddens, L. Coussement, C. Frankl-Vilches, G. Majumdar, S. Steyaert, S. Ter Haar, J. Galle, E. De Meester, S. De Keulenaer, W. Van Criekinge, C. Cornil, J. Balthazart, A. Van der Linden, T. De Meyer and W. Vanden Berghe
(2021) FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY, 9, 583555

Clinically relevant aberrant Filip1l DNA methylation detected in a murine model of cutaneous squamous cell carcinoma
K. Roth, L. Coussement, E. Knatko, M. Higgins, S. Steyaert, C. Proby, T. De Meyer and A. Dinkova-Kostova
(2021) EBIOMEDICINE, 67, 103383