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A thorough analysis of the contribution of experimental, derived and sequence-based predicted protein-protein interactions for functional annotation of proteins2020 PLoS ONE article Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Stavros Makrodimitris, Marcel J. T. Reinders, Roeland C. H. J. van Ham
4citations -
Functional annotation of the 2q35 breast cancer risk locus implicates a structural variant in influencing activity of a long-range enhancer element2021 The American Journal of Human Genetics article Biochemistry, Genetics and Molecular Biology Genomics and Chromatin Dynamics Open access
Joseph S. Baxter, Nichola Johnson, Katarzyna Tomczyk, Andrea Gillespie, Sarah L. Maguire, Rachel Brough, +93 more
9citations -
Variants of uncertain clinical significance in hereditary breast and ovarian cancer genes: best practices in functional analysis for clinical annotation2020 Journal of Medical Genetics article Biochemistry, Genetics and Molecular Biology BRCA gene mutations in cancer Open access
Álvaro N.A. Monteiro, Arne Nedergaard Kousholt, Diana Eccles, Gaël A. Millot, Jean‐Yves Masson, Marjanka K. Schmidt, +5 more
48citations -
Unsupervised protein embeddings outperform hand-crafted sequence and structure features at predicting molecular function2020 Bioinformatics article Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access cited by 2 patents
Amelia Villegas-Morcillo, Stavros Makrodimitris, Roeland C. H. J. van Ham, Angel Manuel Gomez, Marcel J. T. Reinders
137citations -
Nitrogen Metabolism in Pseudomonas putida: Functional Analysis Using Random Barcode Transposon Sequencing2022 Applied and Environmental Microbiology article Biochemistry, Genetics and Molecular Biology Microbial Metabolic Engineering and Bioproduction Open access
Matthias Schmidt, Allison N. Pearson, Matthew R. Incha, Mitchell G. Thompson, Edward E. K. Baidoo, Ramu D. Kakumanu, +5 more
27citations -
Precision Activity‐Based α‐Amylase Probes for Dissection and Annotation of Linear and Branched‐Chain Starch‐Degrading Enzymes2024 Angewandte Chemie International Edition article Biochemistry, Genetics and Molecular Biology Enzyme Catalysis and Immobilization Open access
Isabelle B. Pickles, Yurong Chen, Olga V. Moroz, Haley A. Brown, Casper de Boer, Zachary Armstrong, +6 more
10citations -
Precision Activity‐Based α‐Amylase Probes for Dissection and Annotation of Linear and Branched‐Chain Starch‐Degrading Enzymes2024 Angewandte Chemie article Biochemistry, Genetics and Molecular Biology Enzyme Catalysis and Immobilization Open access
Isabelle B. Pickles, Yurong Chen, Olga V. Moroz, Haley A. Brown, Casper de Boer, Zachary Armstrong, +6 more
0citations -
GeneSurfer enables transcriptome-wide exploration and annotation of gene co-expression modules in 3D spatial transcriptomics data2025 iScience article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Chang Li, Julian Thijssen, Thomas Kroes, Ximaine R. van der Burg, Louise van der Weerd, Thomas Höllt, +1 more
0citations -
EukFunc : A Holistic Eukaryotic Functional Reference for Automated Profiling of Soil Eukaryotes2025 Molecular Ecology Resources article Agricultural and Biological Sciences Mycorrhizal Fungi and Plant Interactions Open access
Guillaume Lentendu, David Singer, Sabine Agatha, Mohammad Bahram, S. Emilia Hannula, Johannes Helder, +4 more
17citations -
Investigating enzyme function by geometric matching of catalytic motifs2026 Protein Science article Biochemistry, Genetics and Molecular Biology Protein Structure and Dynamics Open access
R. Hackett, Ioannis G. Riziotis, Martin F. Larralde, António J. M. Ribeiro, Georg Zeller, Janet M. Thornton
0citations -
Bone morphogenetic protein receptors: Structure, function and targeting by selective small molecule kinase inhibitors2020 Bone article Biochemistry, Genetics and Molecular Biology TGF-β signaling in diseases Open access cited by 13 patents
Gonzalo Sánchez‐Duffhues, Eleanor Williams, Marie‐José Goumans, Carl‐Henrik Heldin, Peter ten Dijke
118citations -
Analysis and Annotation of DNA Methylation in Two Nonhuman Primate Species Using the Infinium Human Methylation 450K and EPIC BeadChips2021 Epigenomics article Biochemistry, Genetics and Molecular Biology Epigenetics and DNA Methylation Open access
Fabien Pichon, Yimin Shen, Florence Busato, Simon P. Jochems, Béatrice Jacquelin, Roger Le Grand, +3 more
14citations -
Epigenome-Wide Association Study Reveals CpG Sites Associated with Thyroid Function and Regulatory Effects on KLF92023 Thyroid article Biochemistry, Genetics and Molecular Biology Epigenetics and DNA Methylation Open access
Antoine Weihs, Layal Chaker, Tiphaine C. Martin, Kim V.E. Braun, Purdey J. Campbell, Simon R. Cox, +35 more
9citations -
Lineage-specific microbial protein prediction enables large-scale exploration of protein ecology within the human gut2025 Nature Communications article Biochemistry, Genetics and Molecular Biology Genomics and Phylogenetic Studies Open access
Matthias A. Schmitz, Nicholas J Dimonaco, Thomas Clavel, Thomas C. A. Hitch
9citations