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Dominique Sydow
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Advances and challenges in computational target prediction
D Sydow, L Burggraaff, A Szengel, HWT van Vlijmen, AP IJzerman, ...
Journal of chemical information and modeling 59 (5), 1728-1742, 2019
702019
Ligand binding ensembles determine graded agonist efficacies at a G protein-coupled receptor
A Bock, M Bermudez, F Krebs, C Matera, B Chirinda, D Sydow, ...
Journal of Biological Chemistry 291 (31), 16375-16389, 2016
702016
More than a look into a crystal ball: Protein structure elucidation guided by molecular dynamics simulations
M Bermudez, J Mortier, C Rakers, D Sydow, G Wolber
Drug Discovery Today 21 (11), 1799-1805, 2016
462016
Arginase structure and inhibition: catalytic site plasticity reveals new modulation possibilities
J Mortier, JRC Prévost, D Sydow, S Teuchert, C Omieczynski, ...
Scientific reports 7 (1), 1-9, 2017
332017
TeachOpenCADD: a teaching platform for computer-aided drug design using open source packages and data
D Sydow, A Morger, M Driller, A Volkamer
Journal of cheminformatics 11 (1), 1-7, 2019
302019
Molecular insight on the binding of NNRTI to K103N mutated HIV-1 RT: molecular dynamics simulations and dynamic pharmacophore analysis
B Nizami, D Sydow, G Wolber, B Honarparvar
Molecular Biosystems 12 (11), 3385-3395, 2016
262016
Ribo-seQC: comprehensive analysis of cytoplasmic and organellar ribosome profiling data
L Calviello, D Sydow, D Harnett, U Ohler
BioRxiv, 601468, 2019
172019
TeachOpenCADD-KNIME: a teaching platform for computer-aided drug design using KNIME workflows
D Sydow, M Wichmann, J Rodríguez-Guerra, D Goldmann, G Landrum, ...
Journal of Chemical Information and Modeling 59 (10), 4083-4086, 2019
132019
KinFragLib: exploring the kinase inhibitor space using subpocket-focused fragmentation and recombination
D Sydow, P Schmiel, J Mortier, A Volkamer
Journal of Chemical Information and Modeling 60 (12), 6081-6094, 2020
102020
Dynophores: novel dynamic pharmacophores
D Sydow
Humboldt-Universität zu Berlin, Lebenswissenschaftliche Fakultät, 2015
102015
Dynophores: Novel Dynamic Pharmacophores Implementation of Pharmacophore Generation Based on Molecular Dynamics Trajectories and Their Graphical Representation
D Sydow
Freie Universität Berlin: Berlin, Germany, 2015
72015
Ribo-seQC: comprehensive analysis of cytoplasmic and organellar ribosome profiling data. bioRxiv: 601468
L Calviello, D Sydow, D Harnett, U Ohler
62019
OpenCADD-KLIFS: A Python package to fetch kinase data from the KLIFS database
D Sydow, J Rodríguez-Guerra, A Volkamer
Journal of Open Source Software 7 (70), 3951, 2022
22022
Analyzing Kinase Similarity in Small Molecule and Protein Structural Space to Explore the Limits of Multi-Target Screening
D Schmidt, MM Scharf, D Sydow, E Aßmann, M Martí-Solano, M Keul, ...
Molecules 26 (3), 629, 2021
22021
Teaching Computer-Aided Drug Design Using TeachOpenCADD
D Sydow, J Rodríguez-Guerra, A Volkamer
Teaching Programming across the Chemistry Curriculum, 135-158, 2021
22021
105 Stabilization effects induced by modified nucleotides in tRNA T-loop motifs
D Sydow, F Leonarski, L D’Ascenzo, P Auffinger
Journal of Biomolecular Structure and Dynamics 33 (sup1), 66-66, 2015
22015
TeachOpenCADD 2022: open source and FAIR Python pipelines to assist in structural bioinformatics and cheminformatics research
D Sydow, J Rodríguez-Guerra, TB Kimber, D Schaller, CJ Taylor, Y Chen, ...
Nucleic Acids Research 50 (W1), W753-W760, 2022
12022
KiSSim: Predicting off-targets from structural similarities in the kinome
D Sydow, E Aßmann, AJ Kooistra, F Rippmann, A Volkamer
Journal of Chemical Information and Modeling 62 (10), 2600-2616, 2022
12022
Genome-wide analysis of actively translated open reading frames using riboTaper/ORFquant
D Harnett, E Meerdink, L Calviello, D Sydow, U Ohler
Ribosome Profiling, 331-346, 2021
12021
Kinase Similarity Assessment Pipeline for Off-Target Prediction [v1. 0]
T Kimber, D Sydow, A Volkamer
Living Journal of Computational Molecular Science 3 (1), 1599-1599, 2021
2021
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Articles 1–20