List of works by Julio Vera

14-3-3sigma gene silencing during melanoma progression and its role in cell cycle control and cellular senescence.

scientific article

A gene regulatory architecture that controls region-independent dynamics of oligodendrocyte differentiation

scientific article published on 07 February 2019

A model-based strategy to investigate the role of microRNA regulation in cancer signalling networks.

scientific article published on 31 August 2010

A multi-level model accounting for the effects of JAK2-STAT5 signal modulation in erythropoiesis

scientific article published on 9 July 2009

A new semisynthetic cardenolide analog 3β-[2-(1-amantadine)- 1-on-ethylamine]-digitoxigenin (AMANTADIG) affects G2/M cell cycle arrest and miRNA expression profiles and enhances proapoptotic survivin-2B expression in renal cell carcinoma cell lines.

scientific article published on 14 January 2017

A system biology approach to understand functional activity of cell communication systems.

scientific article published in January 2008

A systems biology approach to analyse amplification in the JAK2-STAT5 signalling pathway

scientific article published on 25 April 2008

A systems' biology approach to study microRNA-mediated gene regulatory networks

scientific article (publication date: 2013)

A web platform for the network analysis of highthroughput data in melanoma and its use to investigate mechanisms of resistance to anti-PD1 immunotherapy.

scientific article published on 2 February 2018

An Interactive Macrophage Signal Transduction Map Facilitates Comparative Analyses of High-Throughput Data.

scientific article

Analysis of cell adhesion during early stages of colon cancer based on an extended multi-valued logic approach

scientific article

Baccoside A suppresses epileptic-like seizure/convulsion in Caenorhabditis elegans

Bacterial Adherence and Dwelling Probability: Two Drivers of Early Alveolar Infection by Streptococcus pneumoniae Identified in Multi-Level Mathematical Modeling.

scientific article published on 15 May 2018

Biochemical pathway modeling tools for drug target detection in cancer and other complex diseases.

scientific article

Can Gamification Contribute to Computer Modeling-Driven Biomedical Research?

scientific article

Computational analysis and modeling the effectiveness of 'Zanamivir' targeting neuraminidase protein in pandemic H1N1 strains

scientific article

Computational analysis of target hub gene repression regulated by multiple and cooperative miRNAs

scientific article published on 13 July 2012

Cooperative gene regulation by microRNA pairs and their identification using a computational workflow

scientific article published on 29 May 2014

Corrigendum: Multiplicity of Mathematical Modeling Strategies to Search for Molecular and Cellular Insights into Bacteria Lung Infection.

scientific article published on 30 October 2017

Design of metabolic engineering strategies for maximizing L-(-)-carnitine production by Escherichia coli. Integration of the metabolic and bioreactor levels.

scientific article published in March 2005

Detection and Analysis of Critical Dynamic Properties of Oligodendrocyte Differentiation

scientific article published in 2022

Detection of potential enzyme targets by metabolic modelling and optimization: application to a simple enzymopathy

scientific article published on 22 June 2007

Dissecting Long-Term Glucose Metabolism Identifies New Susceptibility Period for Metabolic Dysfunction in Aged Mice

scientific article published on 5 November 2015

Dynamic energy budget approaches for modelling organismal ageing

scientific article

Dynamic properties of a delayed protein cross talk model.

scientific article published on 18 July 2007

Dynamical effects of epigenetic silencing of 14-3-3sigma expression

scientific article

Dynamics of receptor and protein transducer homodimerisation

scientific article published on 31 October 2008

Electroporated Antigen-Encoding mRNA Is Not a Danger Signal to Human Mature Monocyte-Derived Dendritic Cells.

scientific article published on 28 December 2015

Emerging functional markers for cancer stem cell-based therapies: Understanding signaling networks for targeting metastasis

scientific article published on 30 June 2018

Exploration of homodimer receptor: homodimer protein interactions.

scientific article published on January 2009

Genome-wide Chromatin Profiling of Legionella pneumophila-Infected Human Macrophages Reveals Activation of the Probacterial Host Factor TNFAIP2.

scientific article published on 29 April 2016

Glaucoma-TrEl: A web-based interactive database to build evidence-based hypotheses on the role of trace elements in glaucoma

scientific article published in 2022

Growth and ligninolytic system production dynamics of the Phanerochaete chrysosporium fungus A modelling and optimization approach.

scientific article published on 22 July 2008

Heterogeneous fate choice of genetically modulated adult neural stem cells in gray and white matter of the central nervous system

scientific article published on 21 October 2019

Hybrid modeling of the crosstalk between signaling and transcriptional networks using ordinary differential equations and multi-valued logic

scientific article published on 18 May 2013

Identification of immunogenic consensus T-cell epitopes in globally distributed influenza-A H1N1 neuraminidase

scientific article published in 2011

Identification of miRNA-mRNA Modules in Colorectal Cancer Using Rough Hypercuboid Based Supervised Clustering

scientific article (publication date: 21 February 2017)

In silico approaches and the role of ontologies in aging research

scientific article

Integration of sensitivity and bifurcation analysis to detect critical processes in a model combining signalling and cell population dynamics

article

Investigating dynamics of inhibitory and feedback loops in ERK signalling using power-law models

scientific article published on 18 August 2010

Kinetic modeling-based detection of genetic signatures that provide chemoresistance via the E2F1-p73/DNp73-miR-205 network

scientific article published on 27 February 2013

MetMAP: an integrated Matlab package for analysis and optimization of metabolic systems

scientific article published on 01 January 2004

MiR-205-5p and miR-342-3p cooperate in the repression of the E2F1 transcription factor in the context of anticancer chemotherapy resistance.

scientific article published in January 2018

MicroRNA-regulated networks: the perfect storm for classical molecular biology, the ideal scenario for systems biology

scientific article published on January 2013

MicroRNAs Constitute a Negative Feedback Loop in Streptococcus pneumoniae-Induced Macrophage Activation.

scientific article published on 16 March 2016

Model based optimization of biochemical systems using multiple objectives: a comparison of several solution strategies

Model-based genotype-phenotype mapping used to investigate gene signatures of immune sensitivity and resistance in melanoma micrometastasis

scientific article published on 26 April 2016

Model-based investigation of the transcriptional activity of p53 and its feedback loop regulation via 14-3-3σ.

scientific article published in September 2011

Modeling miRNA regulation in cancer signaling systems: miR-34a regulation of the p53/Sirt1 signaling module

scientific article published on January 2012

Multicriteria optimization of biochemical systems by linear programming: application to production of ethanol by Saccharomyces cerevisiae

scientific article

Multiplicity of Mathematical Modeling Strategies to Search for Molecular and Cellular Insights into Bacteria Lung Infection.

scientific article published on 30 August 2017

Non-coding RNA detection methods combined to improve usability, reproducibility and precision

scientific article

PLMaddon: a power-law module for the Matlab SBToolbox.

scientific article published on 11 May 2007

Personalized cancer immunotherapy using Systems Medicine approaches

scientific article published on 14 July 2015

Power-law models of signal transduction pathways

scientific article (publication date: July 2007)

Role of inhibitory proteins as modulators of oscillations in NFB signalling.

scientific article published in March 2009

Rough hypercuboid based supervised clustering of miRNAs.

scientific article

SBML export interface for the systems biology toolbox for MATLAB.

scientific article published on 23 March 2007

Serum levels of miR-320 family members are associated with clinical parameters and diagnosis in prostate cancer patients.

scientific article published on 30 December 2017

Systems Biology and Bioinformatics in Aging Research: A Workshop Report

Systems Medicine for Lung Diseases: Phenotypes and Precision Medicine in Cancer, Infection, and Allergy

scientific article published on January 2016

Systems biologists seek fuller integration of systems biology approaches in new cancer research programs

scientific article

Systems biology approaches in aging research.

scientific article

Systems biology of JAK-STAT signalling in human malignancies

scientific article published on 06 July 2011

Systems biology-based investigation of cooperating microRNAs as monotherapy or adjuvant therapy in cancer

scientific article published on 01 September 2019

THP-1-derived macrophages render lung epithelial cells hypo-responsive to Legionella pneumophila - a systems biology study.

scientific article published on 20 September 2017

The AP-1 Transcription Factor c-Jun Promotes Arthritis by Regulating Cyclooxygenase-2 and Arginase-1 Expression in Macrophages.

scientific article published on 15 March 2017

The RNA world in the 21st century-a systems approach to finding non-coding keys to clinical questions.

scientific article published on September 2015

The Role of Age, Neutrophil Infiltration and Antibiotics Timing in the Severity of Streptococcus pneumoniae Pneumonia. Insights from a Multi-Level Mathematical Model Approach

scientific article published on 10 November 2020

The Role of Immune Checkpoint Blockade in Uveal Melanoma

scientific article published on 29 January 2020

The systems biology of mitochondrial fission and fusion and implications for disease and aging

scientific article published on February 2014

Third-Kind Encounters in Biomedicine: Immunology Meets Mathematics and Informatics to Become Quantitative and Predictive.

scientific article

Transcription factor Sox10 regulates oligodendroglial Sox9 levels via microRNAs

scientific article published on 3 April 2017

Transcriptional Profiling of Ligand Expression in Cell Specific Populations of the Adult Mouse Forebrain That Regulates Neurogenesis.

scientific article

Transcriptional analysis identifies potential biomarkers and molecular regulators in pneumonia and COPD exacerbation

scientific article published on 14 January 2020

Tumors as chaotic attractors

scientific article published in February 2014

Understanding microRNA-mediated gene regulatory networks through mathematical modelling.

scientific article published on 17 June 2016

Unraveling a tumor type-specific regulatory core underlying E2F1-mediated epithelial-mesenchymal transition to predict receptor protein signatures

scientific article

Whither systems medicine?

scientific article published on 2 March 2018

miR-638 promotes melanoma metastasis and protects melanoma cells from apoptosis and autophagy.

scientific article

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