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| | Issue Date | Title | Contributor(s) | Type | Cat. |
| 1 | 2024 | The Boosting | BECKER, Thijs; GEUBBELMANS, Melvin; ROUSSEAU, Axel-Jan; VALKENBORG, Dirk; BURZYKOWSKI, Tomasz | Journal Contribution | A2 |
| 2 | 2024 | Implementation of polygenic risk scores from sequencing data towards practice by utilizing large publicly available datasets | Rojo, Alejandro Correa; VALKENBORG, Dirk; Ertaylan, Gokhan | Journal Contribution | M |
| 3 | 2023 | Generalized linear models | BURZYKOWSKI, Tomasz; GEUBBELMANS, Melvin; ROUSSEAU, Axel-Jan; VALKENBORG, Dirk | Journal Contribution | A2 |
| 4 | 2023 | Validation of machine learning algorithms | BURZYKOWSKI, Tomasz; GEUBBELMANS, Melvin; ROUSSEAU, Axel-Jan; VALKENBORG, Dirk | Journal Contribution | A2 |
| 5 | 2023 | Introduction to machine learning | BURZYKOWSKI, Tomasz; ROUSSEAU, Axel-Jan; GEUBBELMANS, Melvin; VALKENBORG, Dirk | Journal Contribution | A2 |
| 6 | 2023 | Support vector machines | VALKENBORG, Dirk; ROUSSEAU, Axel-Jan; GEUBBELMANS, Melvin; BURZYKOWSKI, Tomasz | Journal Contribution | A2 |
| 7 | 2023 | Decision trees and random forests | BECKER, Thijs; ROUSSEAU, Axel-Jan; GEUBBELMANS, Melvin; BURZYKOWSKI, Tomasz; VALKENBORG, Dirk | Journal Contribution | A1 |
| 8 | 2023 | A compositional data model to predict the isotope distribution for average peptides using a compositional spline model | AGTEN, Annelies; VILENNE, Frédérique; PROSTKO, Piotr; VALKENBORG, Dirk | Journal Contribution | A1 |
| 9 | 2023 | High-dimensional data | GEUBBELMANS, Melvin; ROUSSEAU, Axel-Jan; VALKENBORG, Dirk; BURZYKOWSKI, Tomasz | Journal Contribution | A2 |
| 10 | 2023 | NMR-Metabolomics Reveals a Metabolic Shift after Surgical Resection of Non-Small Cell Lung Cancer | DERVEAUX, Elien; GEUBBELMANS, Melvin; Criel, Maarten; Demedts, Ingel; Himpe, Ulrike; Tournoy, Kurt; Vercauter, Piet; Johansson, Erik; VALKENBORG, Dirk; VANHOVE, Karolien; MESOTTEN, Liesbet; ADRIAENSENS, Peter; THOMEER, Michiel | Journal Contribution | A1 |
| 11 | 2023 | Supervised learning | VALKENBORG, Dirk; GEUBBELMANS, Melvin; ROUSSEAU, Axel-Jan; BURZYKOWSKI, Tomasz | Journal Contribution | A1 |
| 12 | 2023 | Unsupervised learning | VALKENBORG, Dirk; ROUSSEAU, Axel-Jan; GEUBBELMANS, Melvin; BURZYKOWSKI, Tomasz | Journal Contribution | A2 |
| 13 | 2023 | The isotope distribution: A rose with thorns | CLAESEN, Jurgen; Rockwood, Alan; Gorshkov, Mikhail; VALKENBORG, Dirk | Journal Contribution | A1 |
| 14 | 2023 | Machine learning approach for the prediction of the number of sulphur atoms in peptides using the theoretical aggregated isotope distribution | AGTEN, Annelies; CLAESEN, Jurgen; BURZYKOWSKI, Tomasz; VALKENBORG, Dirk | Journal Contribution | A1 |
| 15 | 2022 | Envemind: Accurate Monoisotopic Mass Determination Based On Isotopic Envelope | Radzinski, Piotr; VALKENBORG, Dirk; Startek, Michal Piotr; Gambin, Anna | Journal Contribution | A1 |
| 16 | 2022 | R Shiny App for the Automated Deconvolution of NMR Spectra to Quantify the Solid-State Forms of Pharmaceutical Mixtures | PROSTKO, Piotr; Pikkemaat, Jeroen; Selter, Philipp; Lukaschek, Michail; Wechselberger, Rainer; KHAMIAKOVA, Tatsiana; VALKENBORG, Dirk | Journal Contribution | A1 |
| 17 | 2022 | Four layer multi-omics reveals molecular responses to aneuploidy in Leishmania | Cuypers, Bart; Meysman, Pieter; Erb, Ionas; Bittremieux, Wout; VALKENBORG, Dirk; Baggerman, Geert; Mertens, Inge; Sundar, Shyam; Khanal, Basudha; Notredame, Cedric; Dujardin, Jean-Claude; Domagalska, Malgorzata A.; Laukens, Kris | Dataset | DS |
| 18 | 2022 | Four layer multi-omics reveals molecular responses to aneuploidy in Leishmania | Cuypers, Bart; Meysman, Pieter; Erb, Ionas; Bittremieux, Wout; VALKENBORG, Dirk; Baggerman, Geert; Mertens, Inge; Sundar, Shyam; Khanal, Basudha; Notredame, Cedric; Dujardin, Jean-Claude; Domagalska, Malgorzata A.; Laukens, Kris; Engwerda, Christian R. | Journal Contribution | A1 |
| 19 | 2022 | Evaluating Feature Attribution Methods in the Image Domain: Benchmark results and model parameters | Gevaert, Arne; ROUSSEAU, Axel-Jan; BECKER, Thijs; VALKENBORG, Dirk; De Bie, Tijl; Saeys, Yvan | Dataset | DS |
| 20 | 2022 | Evaluating Feature Attribution Methods in the Image Domain: High-Dimensional Datasets | Gevaert, Arne; ROUSSEAU, Axel-Jan; BECKER, Thijs; VALKENBORG, Dirk; De Bie, Tijl; Saeys, Yvan | Dataset | DS |
| 21 | 2022 | A prospective observational cohort study to identify inflammatory biomarkers for the diagnosis and prognosis of patients with sepsis | D'ONOFRIO, Valentino; HEYLEN, Dries; PUSPARUM, Murih; Grondman, Inge; VANWALLEGHEM, Johan; Meersman , Agnes; Cartuyvels, Reinoud; MESSIAEN, Peter; Joosten, Leo A. B.; Netea, Mihai G.; VALKENBORG, Dirk; Ertaylan, Gokhan; GYSSENS, Inge | Journal Contribution | A1 |
| 22 | 2021 | A Compositional Model to Predict the Aggregated Isotope Distribution for Average DNA and RNA Oligonucleotides | AGTEN, Annelies; PROSTKO, Piotr; GEUBBELMANS, Melvin; De Vijlder, Thomas; VALKENBORG, Dirk; Liu, Youzhong | Journal Contribution | A1 |
| 23 | 2021 | Masserstein: Linear regression of mass spectra by optimal transport | CIACH, Michal; Miasojedow, Blazej; Skoraczynski, Grzegorz; Majewski, Szymon; Startek, Michal; VALKENBORG, Dirk; Gambin, Anna | Journal Contribution | A1 |
| 24 | 2021 | Classification with a Deferral Option and Low-Trust Filtering for Automated Seizure Detection | BECKER, Thijs; Vandecasteele, Kaat; Chatzichristos, Christos; Van Paesschen, Wim; VALKENBORG, Dirk; Van Huffel, Sabine; De Vos, Maarten | Journal Contribution | A1 |
| 25 | 2021 | Post Training Uncertainty Calibration Of Deep Networks For Medical Image Segmentation | ROUSSEAU, Axel-Jan; BECKER, Thijs; Bertels, Jeroen; Blaschko, Matthew B.; VALKENBORG, Dirk | Proceedings Paper | C1 |
| 26 | 2021 | Constrained Standardization of Count Data from Massive Parallel Sequencing | VAN HOUTVEN, Joris; Cuypers , B; Meysman, P; HOOYBERGHS, Jef; Laukens, K; VALKENBORG, Dirk | Journal Contribution | A1 |
| 27 | 2021 | Towards Building a Quantitative Proteomics Toolbox in Precision Medicine: A Mini-Review | CORREA ROJO, Alejandro; HEYLEN, Dries; AERTS, Jan; THAS, Olivier; HOOYBERGHS, Jef; Ertaylan, Gokhan; VALKENBORG, Dirk | Journal Contribution | A1 |
| 28 | 2021 | CONSTANd: An Efficient Normalization Method for Relative Quantification in Small- and Large-Scale Omics Experiments in R BioConductor and Python | VAN HOUTVEN, Joris; HOOYBERGHS, Jef; Laukens, Kris; VALKENBORG, Dirk | Journal Contribution | A1 |
| 29 | 2021 | Constrained standardization of count data from massive parallel sequencing | VAN HOUTVEN, Joris; Cuypers, Bart; Meysman, Pieter; HOOYBERGHS, Jef; Laukens, Kris; VALKENBORG, Dirk | Preprint | O |
| 30 | 2021 | Analysis of Targeted Proteomics data across different datasets with reference characteristics | HEYLEN, Dries; PUSPARUM, Murih; D'ONOFRIO, Valentino; GYSSENS, Inge; VALKENBORG, Dirk; Ertaylan, Gökhan | Conference Material | C2 |
| 31 | 2021 | Predicting the number of sulfur atoms in peptides and small proteins based on the observed aggregated isotope distribution | CLAESEN, Jurgen; VALKENBORG, Dirk; BURZYKOWSKI, Tomasz | Journal Contribution | A1 |
| 32 | 2020 | IsoSpec2: Ultrafast Fine Structure Calculator | Lacki, Mateusz K.; VALKENBORG, Dirk; Startek, Michal P. | Journal Contribution | A1 |
| 33 | 2020 | MESSAR: Automated recommendation of metabolite substructures from tandem mass spectra | Liu, Youzhong; Mrzic, Aida; Meysman, Pieter; De Vijlder, Thomas; Romijn, Edwin P.; VALKENBORG, Dirk; Bittremieux, Wout; Laukens, Kris | Journal Contribution | A1 |
| 34 | 2020 | Urinary Protein Biomarker Panel for the Diagnosis of Antibody-Mediated Rejection in Kidney Transplant Recipients | Mertens, Inge; Willems, Hanny; Loon, Elisabet Van; Schildermans, Karin; Boonen, Kurt; Baggerman, Geert; VALKENBORG, Dirk; Gwinner, Wilfried; Anglicheau, Dany; Essig, Marie; Marquet, Pierre; Naesens, Maarten | Journal Contribution | A1 |
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