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PlantMetWiki: a FAIR knowledge graph for plant metabolic pathway cross-species representation and integration2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Elena Del Pup, M Muller, Marvin Martens, Egon Willighagen, Marnix H. Medema, Denise Slenter, +1 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 -
A Biomedical Knowledge Graph for Biomarker Discovery in Cancer2023 arXiv (Cornell University) preprint Biochemistry, Genetics and Molecular Biology Biomedical Text Mining and Ontologies Open access
Md. Rezaul Karim, Lina Molinas Comet, Oya Beyan, Dietrich Rebholz‐Schuhmann, Stefan Decker
0citations -
Fast model-free standardization and integration of single-cell transcriptomics data2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Yang Xu, Rafael Kramann, Rachel Patton McCord, Sikander Hayat
0citations -
From Large Language Models to Knowledge Graphs for Biomarker Discovery in Cancer2023 arXiv (Cornell University) preprint Biochemistry, Genetics and Molecular Biology Biomedical Text Mining and Ontologies Open access
Md. Rezaul Karim, Lina Molinas Comet, Md Shajalal, Oya Beyan, Dietrich Rebholz‐Schuhmann, Stefan Decker
3citations -
A patient-centric knowledge graph approach to prioritize mutants for selective anti-cancer targeting2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Marina Gorostiola González, Adriaan P. IJzerman, Gerard J. P. van Westen
0citations -
MSstatsBioNet: Integrating Statistical Analyses with Prior Knowledge Biomolecular Networks for Quantitative Proteomics and Phosphoproteomics2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Anthony Wu, Devon Kohler, Pruthvi Prakash Navada, Julia E. Robbins, Gabriel E. Boyle, Alex Boshart, +7 more
0citations -
A global AOP network for genotoxicity to drive the integration of NAMs2025 preprint Biochemistry, Genetics and Molecular Biology Carcinogens and Genotoxicity Assessment Open access
Emmanuel Demuynck, Tamara Vanhaecke, Anouck Thienpont, Davie Cappoen, Freddy Van Goethem, Levi M. T. Winkelman, +13 more
0citations -
fluxTrAM: Integration of tracer-based metabolomics data into atomically resolved genome-scale metabolic networks for metabolic flux analysis2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Microbial Metabolic Engineering and Bioproduction Open access
Luojiao Huang, German Preciat, Jesús Alarcón-Gil, Edinson Lucumi Moreno, Agnieszka B. Wegrzyn, Ines Thiele, +4 more
1citations