List of works - Leonidas G Alexopoulos

A Biologically-Based Computational Approach to Drug Repurposing for Anthrax Infection

scientific article published on 10 March 2017

A Computational Platform and Guide for Acceleration of Novel Medicines and Personalized Medicine

scientific article published on 01 January 2019

A Functional Landscape of CKD Entities From Public Transcriptomic Data

scientific article published on 13 November 2019

A Novel Multiplex Based Platform for Osteoarthritis Drug Candidate Evaluation

scientific article published on 29 May 2020

A crowd-sourcing approach for the construction of species-specific cell signaling networks

scientific article

A functional landscape of chronic kidney disease entities from public transcriptomic data

A multipathway phosphoproteomic signaling network model of idiosyncratic drug- and inflammatory cytokine-induced toxicity in human hepatocytes

scientific article published on January 2009

An ex vivo tissue model of cartilage degradation suggests that cartilage state can be determined from secreted key protein patterns

scientific article published on 21 October 2019

Blood Plasma Resistin and Atrial Fibrillation in Patients With Cardiovascular Disease

scientific article published on 01 August 2020

Combined logical and data-driven models for linking signalling pathways to cellular response.

scientific article

Comparing signaling networks between normal and transformed hepatocytes using discrete logical models

scientific article

Computational Approaches to Accelerating Novel Medicine and Better Patient Care from Bedside to Benchtop.

scientific article published on 29 October 2015

Computed Biological Relations among Five Select Treatment-Related Organ/Tissue Toxicities

scientific article published on 10 April 2016

Construction of large signaling pathways using an adaptive perturbation approach with phosphoproteomic data

scientific article

Construction of signaling pathways and identification of drug effects on the liver cancer cell HepG2.

scientific article published on January 2010

Correction to: Cue-Signal-Response Analysis in 3D Chondrocyte Scaffolds with Anabolic Stimuli

scientific article published on 01 July 2019

Correction: Towards a Rigorous Assessment of Systems Biology Models: The DREAM3 Challenges.

scientific article published on 9 March 2010

Crowdsourcing network inference: the DREAM predictive signaling network challenge

scientific article

Cue-Signal-Response Analysis in 3D Chondrocyte Scaffolds with Anabolic Stimuli

scientific article published on 16 November 2017

Cytokine-associated drug toxicity in human hepatocytes is associated with signaling network dysregulation

scientific article published on April 2010

Designing Experiments to Discriminate Families of Logic Models

scientific article

Detecting and removing inconsistencies between experimental data and signaling network topologies using integer linear programming on interaction graphs

scientific article

Discrete logic modelling as a means to link protein signalling networks with functional analysis of mammalian signal transduction

scientific article

Dynamics and heterogeneity of brain damage in multiple sclerosis

scientific article

Examining the In-Vitro Efficacy of the IAP Antagonist Birinapant as a Single-Agent or in Combination with Dacarbazine to Induce Melanoma Cell Death

scientific article

Flexible informatics for linking experimental data to mathematical models via DataRail

scientific article

Functional heterogeneity of lymphocytic patterns in primary melanoma dissected through single-cell multiplexing

scientific article published on 14 February 2020

High-Throughput Protein-Based Technologies and Computational Models for Drug Development, Efficacy, and Toxicity

article

Identification of drug-specific pathways based on gene expression data: application to drug induced lung injury

scientific article

Identification of signaling pathways related to drug efficacy in hepatocellular carcinoma via integration of phosphoproteomic, genomic and clinical data

scientific article published on 01 November 2013

Identifying drug effects via pathway alterations using an integer linear programming optimization formulation on phosphoproteomic data

scientific article

Large-scale network models of IL-1 and IL-6 signalling and their hepatocellular specification

scientific article

Leveraging systems biology approaches in clinical pharmacology

scientific article (publication date: December 2013)

MAPK pathway and B cells overactivation in multiple sclerosis revealed by phosphoproteomics and genomic analysis

scientific article published on 19 April 2019

Mechanical Compression Regulates Brain Cancer Cell Migration Through MEK1/Erk1 Pathway Activation and GDF15 Expression

scientific article published on 27 September 2019

Mechanism-based biomarker discovery

scientific article

Modeling of signaling pathways in chondrocytes based on phosphoproteomic and cytokine release data.

scientific article

Modeling signaling pathways in articular cartilage.

scientific article published in January 2011

Multi-tissue network analysis for drug prioritization in knee osteoarthritis

scientific article published on 23 October 2019

Network reconstruction based on proteomic data and prior knowledge of protein connectivity using graph theory

scientific article

Network-Based Analysis of Nutraceuticals in Human Hepatocellular Carcinomas Reveals Mechanisms of Chemopreventive Action

scientific article published in June 2015

Network-based technologies for early drug discovery.

scientific article published on 30 December 2017

Networks inferred from biochemical data reveal profound differences in toll-like receptor and inflammatory signaling between normal and transformed hepatocytes

scientific article

Non Linear Programming (NLP) formulation for quantitative modeling of protein signal transduction pathways

scientific article

Novel approaches to develop community-built biological network models for potential drug discovery

scientific article published on 06 June 2017

Phosphoprotein patterns predict trametinib responsiveness and optimal trametinib sensitisation strategies in melanoma

scientific article published on 15 October 2018

Phosphoproteomics in drug discovery.

scientific article published on 18 October 2013

Post-treatment de-phosphorylation of p53 correlates with dasatinib responsiveness in malignant melanoma

Prediction of combination therapies based on topological modeling of the immune signaling network in Multiple Sclerosis

Proteomic profile of patients with atrial fibrillation undergoing cardiac surgery

scientific article published on 01 January 2019

Ras suppressor-1 (RSU-1) promotes cell invasion in aggressive glioma cells and inhibits it in non-aggressive cells through STAT6 phospho-regulation.

scientific article

Setting the standards for signal transduction research

scientific article published on 15 February 2011

Signaling networks in MS: a systems-based approach to developing new pharmacological therapies

scientific article

Solid stress-induced migration is mediated by GDF15 through Akt pathway activation in pancreatic cancer cells

scientific article published in Scientific Reports

Stress-induced inflammation evoked by immunogenic cell death is blunted by the IRE1α kinase inhibitor KIRA6 through HSP60 targeting

scientific article published on 27 August 2021

Synergistic drug-cytokine induction of hepatocellular death as an in vitro approach for the study of inflammation-associated idiosyncratic drug hepatotoxicity.

scientific article

TAK1 suppresses RIPK1-dependent cell death and is associated with disease progression in melanoma

scientific article published on 08 March 2019

The logic of EGFR/ErbB signaling: theoretical properties and analysis of high-throughput data

scientific article

The species translation challenge-a systems biology perspective on human and rat bronchial epithelial cells

scientific article

Towards a rigorous assessment of systems biology models: the DREAM3 challenges

scientific article

Translational systems biology understanding the limits of animal models as predictors of human biology

Translational systems pharmacology-based predictive assessment of drug-induced cardiomyopathy.

scientific article published on 17 January 2018

Understanding the limits of animal models as predictors of human biology: lessons learned from the sbv IMPROVER Species Translation Challenge

scientific article

Verification of systems biology research in the age of collaborative competition

scientific article

Visceral white adipose tissue and serum proteomic alternations in metabolically healthy obese patients undergoing bariatric surgery

scientific article published on 22 November 2018

List of works by Leonidas G Alexopoulos

A Biologically-Based Computational Approach to Drug Repurposing for Anthrax Infection

A Computational Platform and Guide for Acceleration of Novel Medicines and Personalized Medicine

A Functional Landscape of CKD Entities From Public Transcriptomic Data

A Novel Multiplex Based Platform for Osteoarthritis Drug Candidate Evaluation

A crowd-sourcing approach for the construction of species-specific cell signaling networks

A functional landscape of chronic kidney disease entities from public transcriptomic data

A multipathway phosphoproteomic signaling network model of idiosyncratic drug- and inflammatory cytokine-induced toxicity in human hepatocytes

An ex vivo tissue model of cartilage degradation suggests that cartilage state can be determined from secreted key protein patterns

Blood Plasma Resistin and Atrial Fibrillation in Patients With Cardiovascular Disease

Combined logical and data-driven models for linking signalling pathways to cellular response.

Comparing signaling networks between normal and transformed hepatocytes using discrete logical models

Computational Approaches to Accelerating Novel Medicine and Better Patient Care from Bedside to Benchtop.

Computed Biological Relations among Five Select Treatment-Related Organ/Tissue Toxicities

Construction of large signaling pathways using an adaptive perturbation approach with phosphoproteomic data

Construction of signaling pathways and identification of drug effects on the liver cancer cell HepG2.

Correction to: Cue-Signal-Response Analysis in 3D Chondrocyte Scaffolds with Anabolic Stimuli

Correction: Towards a Rigorous Assessment of Systems Biology Models: The DREAM3 Challenges.

Crowdsourcing network inference: the DREAM predictive signaling network challenge

Cue-Signal-Response Analysis in 3D Chondrocyte Scaffolds with Anabolic Stimuli

Cytokine-associated drug toxicity in human hepatocytes is associated with signaling network dysregulation

Designing Experiments to Discriminate Families of Logic Models

Detecting and removing inconsistencies between experimental data and signaling network topologies using integer linear programming on interaction graphs

Discrete logic modelling as a means to link protein signalling networks with functional analysis of mammalian signal transduction

Dynamics and heterogeneity of brain damage in multiple sclerosis

Examining the In-Vitro Efficacy of the IAP Antagonist Birinapant as a Single-Agent or in Combination with Dacarbazine to Induce Melanoma Cell Death

Flexible informatics for linking experimental data to mathematical models via DataRail

Functional heterogeneity of lymphocytic patterns in primary melanoma dissected through single-cell multiplexing

High-Throughput Protein-Based Technologies and Computational Models for Drug Development, Efficacy, and Toxicity

Identification of drug-specific pathways based on gene expression data: application to drug induced lung injury

Identification of signaling pathways related to drug efficacy in hepatocellular carcinoma via integration of phosphoproteomic, genomic and clinical data

Identifying drug effects via pathway alterations using an integer linear programming optimization formulation on phosphoproteomic data

Large-scale network models of IL-1 and IL-6 signalling and their hepatocellular specification

Leveraging systems biology approaches in clinical pharmacology

MAPK pathway and B cells overactivation in multiple sclerosis revealed by phosphoproteomics and genomic analysis

Mechanical Compression Regulates Brain Cancer Cell Migration Through MEK1/Erk1 Pathway Activation and GDF15 Expression

Mechanism-based biomarker discovery

Modeling of signaling pathways in chondrocytes based on phosphoproteomic and cytokine release data.

Modeling signaling pathways in articular cartilage.

Multi-tissue network analysis for drug prioritization in knee osteoarthritis

Network reconstruction based on proteomic data and prior knowledge of protein connectivity using graph theory

Network-Based Analysis of Nutraceuticals in Human Hepatocellular Carcinomas Reveals Mechanisms of Chemopreventive Action

Network-based technologies for early drug discovery.

Networks inferred from biochemical data reveal profound differences in toll-like receptor and inflammatory signaling between normal and transformed hepatocytes

Non Linear Programming (NLP) formulation for quantitative modeling of protein signal transduction pathways

Novel approaches to develop community-built biological network models for potential drug discovery

Phosphoprotein patterns predict trametinib responsiveness and optimal trametinib sensitisation strategies in melanoma

Phosphoproteomics in drug discovery.

Post-treatment de-phosphorylation of p53 correlates with dasatinib responsiveness in malignant melanoma

Prediction of combination therapies based on topological modeling of the immune signaling network in Multiple Sclerosis

Proteomic profile of patients with atrial fibrillation undergoing cardiac surgery

Ras suppressor-1 (RSU-1) promotes cell invasion in aggressive glioma cells and inhibits it in non-aggressive cells through STAT6 phospho-regulation.

Setting the standards for signal transduction research

Signaling networks in MS: a systems-based approach to developing new pharmacological therapies

Solid stress-induced migration is mediated by GDF15 through Akt pathway activation in pancreatic cancer cells

Stress-induced inflammation evoked by immunogenic cell death is blunted by the IRE1α kinase inhibitor KIRA6 through HSP60 targeting

Synergistic drug-cytokine induction of hepatocellular death as an in vitro approach for the study of inflammation-associated idiosyncratic drug hepatotoxicity.

TAK1 suppresses RIPK1-dependent cell death and is associated with disease progression in melanoma

The logic of EGFR/ErbB signaling: theoretical properties and analysis of high-throughput data

The species translation challenge-a systems biology perspective on human and rat bronchial epithelial cells

Towards a rigorous assessment of systems biology models: the DREAM3 challenges

Translational systems biology understanding the limits of animal models as predictors of human biology

Translational systems pharmacology-based predictive assessment of drug-induced cardiomyopathy.

Understanding the limits of animal models as predictors of human biology: lessons learned from the sbv IMPROVER Species Translation Challenge

Verification of systems biology research in the age of collaborative competition

Visceral white adipose tissue and serum proteomic alternations in metabolically healthy obese patients undergoing bariatric surgery