Saez-Rodriguez Group

Systems Biomedicine

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.

Saez-Rodriguez et al. Kidney Int, 2019

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

Elucidating essential kinases of endothelin signalling by logic modelling of phosphoproteomics data.

Schäfer et al. Mol Syst Biol, 2019

Benchmark and integration of resources for the estimation of human transcription factor activities.

Garcia-Alonso et al. Genome Res, 2019

Network pharmacology modeling identifies synergistic Aurora B and ZAK interaction in triple-negative breast cancer.

Tang et al. NPJ Syst Biol Appl, 2019

Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen.

Menden et al. Nat Commun, 2019