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Machine Learning in Bioinformatics Sign in to save
Papers per year
Papers 25
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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
Amelia Villegas-Morcillo, Stavros Makrodimitris, Roeland C. H. J. van Ham, Angel Manuel Gomez, Marcel J. T. Reinders
137citations -
iFeatureOmega: an integrative platform for engineering, visualization and analysis of features from molecular sequences, structural and ligand data sets2022 Nucleic Acids Research article Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Zhen Chen, Xuhan Liu, Pei Zhao, Chen Li, Yanan Wang, Fuyi Li, +7 more
102citations -
DeepVF: a deep learning-based hybrid framework for identifying virulence factors using the stacking strategy2020 Briefings in Bioinformatics article Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Ruopeng Xie, Jiahui Li, Jiawei Wang, Wei Dai, André Leier, Tatiana T. Marquez‐Lago, +4 more
90citations -
PMIpred: a physics-informed web server for quantitative protein–membrane interaction prediction2024 Bioinformatics article Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Niek van Hilten, Nino Verwei, Jeroen Methorst, Carsten Nase, Andrius Bernatavicius, Herre Jelger Risselada
41citations -
Robust principal component analysis‐based prediction of protein‐protein interaction hot spots2021 Proteins Structure Function and Bioinformatics article Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Divya Sitani, Alejandro Giorgetti, Mercedes Alfonso‐Prieto, Paolo Carloni
17citations -
De Novo Design of High-Performance Sec-type Signal Peptide via a Hybrid Deep Learning Architecture2025 JACS Au article Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Xiaopeng Dai, Yingjun Zhou, Zhimin Li, Yu Ji, Ulrich Schwaneberg, Zonglin Li
8citations -
PMIpred: A physics-informed web server for quantitative Protein-Membrane Interaction prediction2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Niek van Hilten, Nino Verwei, Jeroen Methorst, Carsten Nase, Andrius Bernatavicius, Herre Jelger Risselada
4citations -
Machine learning for optimal growth temperature prediction of prokaryotes using amino acid descriptors2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Sophie Colette, Jérémie François, Bart De Moor, Vera van Noort
4citations -
A structural machine learning approach for rapid prediction of thermodynamically destabilizing tyrosine phosphorylations2025 Cell Reports Methods article Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Jaie C. Woodard, Atena Malemir Chegini, Jian Tian, Rupa Bhowmick, Subramaniam Pennathur, Alireza Mashaghi, +2 more
3citations -
Systematic Characterization of Lysine Post-translational Modification Sites Using MUscADEL2022 Methods in molecular biology book-chapter Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics
Zhen Chen, Xuhan Liu, Fuyi Li, Chen Li, Tatiana T. Marquez‐Lago, André Leier, +4 more
2citations -
Rapid prediction of thermodynamically destabilizing tyrosine phosphorylations in cancers2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Jaie C. Woodard, Atena Malemir Chegini, Jian Tian, Rupa Bhowmick, Subramanium Pennathur, Alireza Mashaghi, +2 more
2citations -
OGTFinder: A Curated Growth Temperature Data Set and Its Application To Predict Optimal Growth Temperatures of Bacteria and Archaea2026 Journal of Chemical Information and Modeling article Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics
Sophie Colette, Jaldert François, Bart De Moor, Vera van Noort
1citations -
Genolator: A Multimodal Large Language Model Fusing Natural Language, Genomic, and Structural Tokens for Protein Function Interpretation2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Martin Danner, Tanhim Islam, Matthias Begemann, Florian Kraft, Miriam Elbracht, Ingo Kurth, +1 more
0citations -
De Novo Design of High-Performance Sec-type Signal Peptide via a Hybrid Deep Learning Architecture2025 RWTH Publications (RWTH Aachen) article Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Xiaopeng Dai, Xiang-chun Meng, Ying-jun Zhou, Yu Ji, Ulrich Schwaneberg, Zonglin Li
0citations -
Genolator enables protein function interpretation using a multimodal large language model fusing genomic and structural interpretation with natural language interaction2026 Genome biology article Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Martin Danner, Tanhim Islam, Matthias Begemann, Florian Kraft, Miriam Elbracht, Ingo Kurth, +1 more
0citations
Most active Aachen authors
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Ingo Kurth 13,878 citations overall4 papers
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Matthias Begemann 4,069 citations overall4 papers
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Miriam Elbracht 3,584 citations overall4 papers
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Jeremias Krause 2,868 citations overall4 papers
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Florian Kraft 1,331 citations overall4 papers
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Tanhim Islam 358 citations overall4 papers
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Martin Danner 2 citations overall4 papers
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Vera van Noort 7,606 citations overall3 papers
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Marcel J. T. Reinders 23,761 citations overall2 papers
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Ulrich Schwaneberg 15,108 citations overall2 papers
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Herre Jelger Risselada 10,905 citations overall2 papers
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Alireza Mashaghi 5,535 citations overall2 papers
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Maria Fyta 2,420 citations overall2 papers
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Xuhan Liu 948 citations overall2 papers
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Niek van Hilten 541 citations overall2 papers