SBML Level 3: an extensible format for the exchange and reuse of biological models.
Keating et al. Mol Syst Biol, 2020
Converting networks to predictive logic models from perturbation signalling data with CellNOpt.
Gjerga et al. Bioinformatics, 2020
Community Assessment of the Predictability of Cancer Protein and Phosphoprotein Levels from Genomics and Transcriptomics.
Yang et al. Cell Syst, 2020
Stratification and prediction of drug synergy based on target functional similarity.
Yang et al. NPJ Syst Biol Appl, 2020
CELLector: Genomics-Guided Selection of Cancer In Vitro Models.
Najgebauer et al. Cell Syst, 2020
Bringing data from curated pathway resources to Cytoscape with OmniPath.
Ceccarelli et al. Bioinformatics, 2020
Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data.
Holland et al. Genome Biol, 2020
Patient-specific logic models of signaling pathways from screenings on cancer biopsies to prioritize personalized combination therapies.
Eduati et al. Mol Syst Biol, 2020
Dysregulated mesenchymal PDGFR-β drives kidney fibrosis.
Buhl et al. Embo Mol Med, 2020
Quantitative Systems Toxicology Modeling To Address Key Safety Questions in Drug Development: A Focus of the TransQST Consortium.
Ferreira et al. Chem Res Toxicol, 2020
Personalized signaling models for personalized treatments.
Saez-Rodriguez et al. Mol Syst Biol, 2020
Kinetic modelling of quantitative proteome data predicts metabolic reprogramming of liver cancer.
Berndt et al. Br J Cancer, 2019
Metabolic rewiring of the hypertensive kidney.
Rinschen et al. Sci Signal, 2019
Influence of Liver Fibrosis on Lobular Zonation.
Ghallab et al. Cells, 2019
The authors reply.
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A Functional Landscape of CKD Entities From Public Transcriptomic Data.
Tajti et al. Kidney Int Rep, 2019
From expression footprints to causal pathways: contextualizing large signaling networks with CARNIVAL.
Liu et al. NPJ Syst Biol Appl, 2019
Signatures of cell death and proliferation in perturbation transcriptomics data-from confounding factor to effective prediction.
Szalai et al. Nucleic Acids Res, 2019
Quantitative Proteome Landscape of the NCI-60 Cancer Cell Lines.
Guo et al. iScience, 2019
Toward Explainable Anticancer Compound Sensitivity Prediction via Multimodal Attention-Based Convolutional Encoders.
Manica et al. Mol Pharm, 2019
Modeling Cell-Cell Interactions from Spatial Molecular Data with Spatial Variance Component Analysis.
Arnol et al. Cell Rep, 2019
Transfer of regulatory knowledge from human to mouse for functional genomics analysis.
Holland et al. Biochim Biophys Acta Gene Regul Mech, 2019
Reproducible biomedical benchmarking in the cloud: lessons from crowd-sourced data challenges.
Ellrott et al. Genome Biol, 2019
Assessment of network module identification across complex diseases.
Choobdar et al. Nat Methods, 2019
Novel plasma peptide markers involved in the pathology of CKD identified using mass spectrometric approach.
Gajjala et al. J Mol Med (Berl), 2019