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iSODA: A Comprehensive Tool for Integrative Omics Data Analysis in Single- and Multi-Omics Experiments2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Damien Olivier‐Jimenez, Rico J. E. Derks, Oscar Harari, Carlos C Cruchaga, Muhammad Asri Mohd Ali, Alessandro Ori, +5 more
0citations -
Phenotype prediction using biologically interpretable neural networks on multi-cohort multi-omics data2024 npj Systems Biology and Applications article Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Arno van Hilten, Jeroen van Rooij, Bastiaan T. Heijmans, Peter A.C. ’t Hoen, Joyce B. J. van Meurs, Rick Jansen, +46 more
22citations -
SpatialCOC: an integrative framework for spatial continuous mapping and cross-omics correction in spatial multi-omics data2026 Nature Communications article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Mingxuan Li, Peisen Sun, Yisi Luo, Guancheng Zhou, Xiaofei Yang, Deyu Meng, +1 more
1citations -
iSODA: A Comprehensive Tool for Integrative Omics Data Analysis in Single- and Multi-Omics Experiments2025 Analytical Chemistry article Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Damien Olivier‐Jimenez, Rico J. E. Derks, Oscar Harari, Carlos C Cruchaga, Muhammad Asri Mohd Ali, Alessandro Ori, +5 more
10citations -
An in-depth comparison of linear and non-linear joint embedding methods for bulk and single-cell multi-omics2023 Briefings in Bioinformatics article Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Stavros Makrodimitris, Bram Pronk, Tamim Abdelaal, Marcel J. T. Reinders
12citations -
A Multi-omics Data Analysis Workflow Packaged as a FAIR Digital Object2022 Research Ideas and Outcomes article Decision Sciences Scientific Computing and Data Management Open access
Anna Niehues, Casper de Visser, Fiona A. Hagenbeek, Naama Karu, Alida S. D. Kindt, Purva Kulkarni, +5 more
1citations -
OmniPath: integrated knowledgebase for multi-omics analysis2025 Nucleic Acids Research article Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Dénes Türei, Jonathan Schaul, Nicolàs Palacio‐Escat, Balázs Bohár, Yunfan Bai, Francesco Ceccarelli, +26 more
21citations -
OmniPath: integrated knowledgebase for multi-omics analysis2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Dénes Türei, Jonathan Schaul, Nicolàs Palacio‐Escat, Balázs Bohár, Yunfan Bai, Francesco Ceccarelli, +26 more
0citations -
Causal integration of multi-omics data with prior knowledge to generate mechanistic hypotheses2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Aurélien J. F. Dugourd, Christoph Kuppe, Marco Sciacovelli, Enio Gjerga, Kristina Bennet Emdal, Dorte B. Bekker‐Jensen, +7 more
16citations -
Integrating multi-omics technologies to decipher microbiome functions2026 Nature Communications article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access
Tim Van Den Bossche, Eunice Lazau, Velma T. E. Aho, J. Alfredo Blakeley‐Ruiz, Maximilian Wolf, Benoit Josef Kunath, +39 more
0citations -
Integrative Multi-omics Analysis of Childhood Aggressive Behavior2022 Behavior Genetics article Biochemistry, Genetics and Molecular Biology Genetic Associations and Epidemiology Open access
Fiona A. Hagenbeek, Jenny van Dongen, René Pool, Peter J. Roetman, Amy C. Harms, Jouke‐Jan Hottenga, +9 more
24citations -
Integrative multi-omics analysis of childhood aggressive behavior2021 medRxiv preprint Biochemistry, Genetics and Molecular Biology Genetic Associations and Epidemiology Open access
Fiona A. Hagenbeek, Jenny van Dongen, René Pool, Peter J. Roetman, Amy C. Harms, Jouke‐Jan Hottenga, +9 more
3citations -
A Multi-omics Data Analysis Workflow Packaged as a FAIR Digital Object2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Decision Sciences Scientific Computing and Data Management Open access
Anna Niehues, Casper de Visser, Fiona A. Hagenbeek, Purva Kulkarni, René Pool, Naama Karu, +7 more
1citations -
Multi-omics phenotyping of the gut-liver axis allows health risk predictability from in vivo subchronic toxicity tests of a low-dose pesticide mixture2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Agricultural and Biological Sciences Pesticide Exposure and Toxicity Open access
Robin Mesnage, Maxime Teixeira, Daniele Mandrioli, Laura Falcioni, Quinten R. Ducarmon, Romy Daniëlle Zwittink, +7 more
5citations