Saez-Rodriguez Group

Systems Biomedicine

The spatial transcriptomic landscape of the healing mouse intestine following damage.

Parigi et al. Nat Commun, 2022

Two heads are better than one: current landscape of integrating QSP and machine learning : An ISoP QSP SIG white paper by the working group on the integration of quantitative systems pharmacology and machine learning.

Zhang et al. J Pharmacokinet Pharmacodyn, 2022

A community challenge for a pancancer drug mechanism of action inference from perturbational profile data.

Douglass et al. Cell Rep Med, 2022

Stabilization but No Functional Influence of HIF-1α Expression in the Intestinal Epithelium during Salmonella Typhimurium Infection.

Robrahn et al. Infect Immun, 2022

COVID-19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms.

Ostaszewski et al. Mol Syst Biol, 2021

MAGED2 controls vasopressin-induced aquaporin-2 expression in collecting duct cells.

Reusch et al. J Proteomics, 2021

SysMod: the ISCB community for data-driven computational modelling and multi-scale analysis of biological systems.

Dräger et al. Bioinformatics, 2021

The human hepatocyte TXG-MAPr: gene co-expression network modules to support mechanism-based risk assessment.

Callegaro et al. Arch Toxicol, 2021

Systems approach reveals distinct and shared signaling networks of the four PGE2 receptors in T cells.

Lone et al. Sci Signal, 2021

Cell-to-cell and type-to-type heterogeneity of signaling networks: insights from the crowd.

Gabor et al. Mol Syst Biol, 2021

SREBP1-induced fatty acid synthesis depletes macrophages antioxidant defences to promote their alternative activation.

Bidault et al. Nat Metab, 2021

Medial Arterial Calcification: JACC State-of-the-Art Review.

Lanzer et al. J Am Coll Cardiol, 2021

Reusability and composability in process description maps: RAS-RAF-MEK-ERK signalling.

Mazein et al. Brief Bioinform, 2021

Transcriptomic Cross-Species Analysis of Chronic Liver Disease Reveals Consistent Regulation Between Humans and Mice.

Holland et al. Hepatol Commun, 2021

Partial Inhibition of the 6-Phosphofructo-2-Kinase/Fructose-2,6-Bisphosphatase-3 (PFKFB3) Enzyme in Myeloid Cells Does Not Affect Atherosclerosis.

Tillie et al. Front Cell Dev Biol, 2021

Prediction of combination therapies based on topological modeling of the immune signaling network in multiple sclerosis.

Bernardo-Faura et al. Genome Med, 2021

Contextualization of causal regulatory networks from toxicogenomics data applied to drug-induced liver injury.

Trairatphisan et al. Toxicol Lett, 2021

A comprehensive database for integrated analysis of omics data in autoimmune diseases.

Martorell-Marugán et al. Bmc Bioinformatics, 2021

New insights into the mechanisms underlying 5-fluorouracil-induced intestinal toxicity based on transcriptomic and metabolomic responses in human intestinal organoids.

Rodrigues et al. Arch Toxicol, 2021

Deep spatial profiling of human COVID-19 brains reveals neuroinflammation with distinct microanatomical microglia-T-cell interactions.

Schwabenland et al. Immunity, 2021

Advances in systems biology modeling: 10 years of crowdsourcing DREAM challenges.

Meyer et al. Cell Syst, 2021

Integration of temporal single cell cellular stress response activity with logic-ODE modeling reveals activation of ATF4-CHOP axis as a critical predictor of drug-induced liver injury.

Wijaya et al. Biochem Pharmacol, 2021

Deciphering the signaling network of breast cancer improves drug sensitivity prediction.

Tognetti et al. Cell Syst, 2021

How will artificial intelligence and bioinformatics change our understanding of IgA Nephropathy in the next decade?

Bülow et al. Semin Immunopathol, 2021

Transcription Factor Activity Inference in Systemic Lupus Erythematosus.

Lopez-Dominguez et al. Life (Basel), 2021