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The use of Foundational Ontologies in Bioinformatics2022 Research Square preprint Biochemistry, Genetics and Molecular Biology Biomedical Text Mining and Ontologies Open access
César H. Bernabé, Núria Queralt-Rosiñach, Vítor E. Silva Souza, Luiz Olavo Bonino da Silva Santos, Barend Mons, Annika Jacobsen, +1 more
1citations -
Probing the transcriptome response to shivering in skeletal muscle using a multilayered bioinformatics approach2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Adipose Tissue and Metabolism Open access
Rosalie Baak, Guido J. E. J. Hooiveld, Patrick Schrauwen, Joris Hoeks, Reinier Raymakers, Anja van de Stolpe, +2 more
0citations -
Future Computer Systems and Networking Research in the Netherlands: A Manifesto2022 arXiv (Cornell University) preprint Computer Science Distributed and Parallel Computing Systems Open access
Alexandru Iosup, Fernando A. Kuipers, Ana Lucia Vărbănescu, Paola Grosso, Animesh Trivedi, Jan S. Rellermeyer, +3 more
1citations -
Integrative analysis of CAKUT multi-omics data2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Jumamurat R. Bayjanov, Cenna Doornbos, Ozan Özışık, Woosub Shin, Núria Queralt-Rosiñach, Daphne Wijnbergen, +7 more
0citations -
Integrated intra- and intercellular signaling knowledge for multicellular omics analysis2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Dénes Türei, Alberto Valdeolivas, Lejla Gul, Nicolàs Palacio‐Escat, Olga Ivanova, Attila Gábor, +3 more
36citations -
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 -
The Molecular Human – A Roadmap of Molecular Interactions Linking Multiomics Networks with Disease Endpoints2022 medRxiv preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Anna Halama, Shaza B. Zaghlool, Gaurav Thareja, Sara Abdul Kader, Wadha Al Muftha, Marjonneke J. Mook-Kanamori, +17 more
5citations -
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 -
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 -
Reusability and composability in process description maps: RAS-RAF-MEK-ERK signalling2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Alexander Mazein, Adrien Rougny, Jonathan R. Karr, Julio Sáez-Rodríguez, Marek Ostaszewski, Reinhard Schneider
3citations -
KidneyNetwork: Using kidney-derived gene expression data to predict and prioritize novel genes involved in kidney disease2022 Research Square preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Floranne Boulogne, Laura R. Claus, Henry H. Wiersma, Roy Oelen, Floor Schukking, Niek de Klein, +15 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 -
Plant PhysioSpace: a robust tool to compare stress response across plant species2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Ali Hadizadeh Esfahani, Janina Maß, Asis Hallab, Bernhard Schuldt, David Nevarez, Björn Usadel, +3 more
1citations -
Utilizing gene co-expression networks with the rat kidney TXG-MAPr tool to enhance safety assessment, biomarker identification and human translation2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Steven J. Kunnen, Giulia Callegaro, Jeffrey J. Sutherland, Panuwat Trairatphisan, Hugo W van Kessel, Lukas S. Wijaya, +11 more
1citations -
A comprehensive and centralized database for exploring omics data in Autoimmune Diseases2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Jordi Martorell‐Marugán, Raúl López-Domínguez, Adrián García-Moreno, Daniel Toro Dominguez, Juan Antonio Villatoro-García, Guillermo Barturen, +10 more
1citations