Publications of TMH Dijkstra

Maksymenko, K.; Maurer, A.; Aghaallaei, N.; Barry, C.; Borbarán-Bravo, N.; Ullrich, T.; Dijkstra, T.; Hernandez-Alvarez, B.; Müller, P.; Lupas, A. et al.; Skokowa, J.; ElGamacy, M.: The design of functional proteins using tensorized energy calculations. Cell Reports Methods 3 (8), 100560 (2023)

Bakker, R.; Ellers, J.; Roelofs, D.; Vooijs, R.; Dijkstra, T.; van Gestel, C.; Hoedjes, K.: Combining time-resolved transcriptomics and proteomics data for Adverse Outcome Pathway refinement in ecotoxicology. Science of the Total Environment 869, 161740 (2023)

Shapovalova, Y.; Heskes, T.; Dijkstra, T.: Non-parametric synergy modeling of chemical compounds with Gaussian processes. BMC Bioinformatics 23, 14, p. 1 (2022)

Netz, E.; Dijkstra, T.; Sachsenberg, T.; Zimmermann, L.; Walzer, M.; Monecke, T.; Ficner, R.; Dybkiv, O.; Urlaub, H.; Kohlbacher, O.: OpenPepXL: An open-source tool for sensitive identification of cross-linked peptides in XL-MS. Molecular and Cellular Proteomics 19 (12), pp. 2157 - 2168 (2020)

Abbas, S.; Dijkstra, T.: Detection and stage classification of Plasmodium falciparum from images of Giemsa stained thin blood films using random forest classifiers. Diagnostic Pathology 15 (1), 130 (2020)

Pfeuffer, J.; Sachsenberg, T.; Dijkstra, T.; Serang, O.; Reinert, K.; Kohlbacher, O.: EPIFANY: A Method for Efficient High-Confidence Protein Inference. Journal of Proteome Research 19 (3), pp. 1060 - 1072 (2020)

Lederer, S.; Dijkstra, T.; Heskes, T.: Additive Dose Response Models: Defining Synergy. Frontiers in Pharmacology 10, 1384 (2019)

an den Brand, J.; Dijkstra, T.; Wetzels, J.; Stengel, B.; Metzger, M.; Blankestijn, P.; Lambers Heerspink, H.; Gansevoort, R.: Predicting kidney failure from longitudinal kidney function trajectory: A comparison of models. PLoS One 14 (5), e0216559 (2019)

Thijssen, B.; Dijkstra, T.; Heskes, T.; Wessels, L.: Bayesian data integration for quantifying the contribution of diverse measurements to parameter estimates. Bioinformatics 34 (5), pp. 803 - 811 (2018)

Lederer, S.; Dijkstra, T.; Heskes, T.: Additive Dose Response Models: Explicit Formulation and the Loewe Additivity Consistency Condition. Frontiers in Pharmacology 9, 31 (2018)

Fedorov, L.; Dijkstra, T.; Giese, M.: Lighting-from-above prior in biological motion perception. Scientific Reports 8, 1507 (2018)

Thijssen, B.; Dijkstra, T.; Heskes, T.; Wessels, L.: BCM: toolkit for Bayesian analysis of Computational Models using samplers. BMC Systems Biology 10, 100 (2016)

Sachsenberg, T.; Stützer, A.; Chernev, A.; Netz, E.; Dijkstra, T.; Urlaub, H.; Kohlbacher, O.: A Novel Computational Approach for Simultaneous Identification of Protein-RNA and Protein-DNA Interactions from XL-MS Data. In 67th ASMS Conference on Mass Spectrometry and Allied Topics. 67th ASMS Conference on Mass Spectrometry and Allied Topics, Atlanta, GA, USA, June 02, 2019 - June 06, 2019. (2019)

Weidmann, L.; Dijkstra, T.; Kohlbacher, O.; Lupas, A.: The Power of Reuse in the Evolution of natural Proteins. In 4th Symposium on Non-Globular Proteins (NGP-NET 2018), O23, p. 31. 4th Symposium on Non-Globular Proteins (NGP-NET 2018), Druskininkai, Lithuania, September 12, 2018 - September 14, 2018. (2018)

Fedorov, L.; Werner, J.; Dijkstra, T.; Yang, M.; Murayama, Y.; Logothetis, N.: A closed form equation for extracellular field at a point for time series simulation in diffuse structures. Bernstein Conference 2021 (2021)

Netz, E.; Dijkstra, T.; Sachsenberg, T.; Kohlbacher, O.: OpenPepXL: An open-source tool for sensitive identification of cross-linked peptides in XL-MS. 68th ASMS Conference on Mass Spectrometry and Allied Topics (2020)

Netz, E.; Dijkstra, T.; Sachsenberg, T.; Kohlbacher, O.: OpenPepXL: Sensitive, Comprehensive Identification and Quantification of Protein-Protein Cross-Links. 67th ASMS Conference on Mass Spectrometry and Allied Topics, Atlanta, GA, USA (2019)

Netz, E.; Dijkstra, T.; Kohlbacher, O.: OpenPepXL: a versatile and sensitive XL-MS identification tool. 8th Symposium on Structural Proteomics (8SSP), Berlin, Germany (2018)

Weidmann, L.; Dijkstra, T.; Kohlbacher, O.; Lupas, A.: The prevalence of conservative evolution in the protein sequence universe. CAS Conference 2018: Molecular Origins of LIFE, München, Germany (2018)

Netz, E.; Dijkstra, T.; Kohlbacher, O.: OpenPepXL: a Versatile and Sensitive XL-MS Identification Tool. 66th ASMS Conference on Mass Spectrometry and Allied Topics, San Diego, CA, USA (2018)