A5090967392- Bioinformatics and Genomic Networks
- Computational Drug Discovery Methods
- Gene expression and cancer classification
- Gene Regulatory Network Analysis
- Protein Degradation and Inhibitors
- COVID-19 epidemiological studies
- Cutaneous lymphoproliferative disorders research
- Pharmacogenetics and Drug Metabolism
- RNA and protein synthesis mechanisms
- T-cell and Retrovirus Studies
- COVID-19 Clinical Research Studies
- SARS-CoV-2 and COVID-19 Research
- Microbial Metabolic Engineering and Bioproduction
- Piperaceae Chemical and Biological Studies
- Microbial Natural Products and Biosynthesis
- Cancer Research and Treatment
- Atherosclerosis and Cardiovascular Diseases
- IL-33, ST2, and ILC Pathways
- Cancer-related cognitive impairment studies
- Microscopic Colitis
- Histone Deacetylase Inhibitors Research
- Lung Cancer Treatments and Mutations
- Free Radicals and Antioxidants
- Cholesterol and Lipid Metabolism
- Phytochemicals and Antioxidant Activities
Cyprus Institute of Neurology and Genetics
2017-2025
Democritus University of Thrace
2020-2021
Academy of Athens
2014-2017
National and Kapodistrian University of Athens
2014-2016
Biomedical Research Foundation of the Academy of Athens
2015
Max Planck Institute for Molecular Genetics
2014
Johannes Gutenberg University Mainz
2014
Biomedical Research Foundation
2014
Andreas Sygros Hospital
2014
Alarming epidemiological features of Alzheimer’s disease impose curative treatment rather than symptomatic relief. Drug repurposing, that is reappraisal a substance’s indications against other diseases, offers time, cost and efficiency benefits in drug development, especially when silico techniques are used. In this study, we have used gene signatures, where up- down-regulated lists summarize cell’s expression perturbation from or disease. To cope with the inherent biological computational...
This study aims to highlight SARS-COV-2 mutations which are associated with increased or decreased viral virulence. We utilize genetic data from all strains available GISAID and countries’ regional information, such as deaths cases per million, well COVID-19-related public health austerity measure response times. Initial indications of selective advantage specific can be obtained calculating their frequencies across strains. By applying modelling approaches, we provide additional information...
Space exploration has progressed from contemporary discoveries to current endeavors, such as space tourism and Mars missions. As human activity in accelerates, understanding the physiological effects of microgravity on body is becoming increasingly critical. This study analyzes transcriptomic data cell lines exposed microgravity, investigates its gene expression, identifies potential therapeutic interventions for health challenges posed by spaceflight. Our analysis identified five...
The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pandemic is undeniably the most global health emergency since 1918 Influenza outbreak. Depending on its evolutionary trajectory, virus expected to establish itself as an endemic infectious disease exhibiting seasonal flare-ups. Therefore, despite unprecedented rally reach a vaccine that can offer widespread immunization, it equally important effective prevention and treatment regimens for 2019 (COVID-19). Contributing this...
Abstract Systemic approaches are essential in the discovery of disease-specific genes, offering a different perspective and new tools on analysis several types molecular relationships, such as gene co-expression or protein-protein interactions. However, due to lack experimental information, this is not fully applicable. The aim study reveal multi-potent contribution statistical network inference methods highlighting significant genes We have investigated ability networks highlight prioritize...
Alzheimer's disease (AD) is a progressive neurodegenerative and the most common type of dementia. With no disease-curing drugs available an ever-growing AD-related healthcare burden, novel approaches for identifying therapies are needed. In this work, we propose stage-specific candidate repurposed against AD by using network-based method drug repurposing different stages severity. For each stage, approach a) ranks based on score emerging from weighted sum connections in network resembling...
Abstract Idiopathic Pulmonary Fibrosis (IPF) is a rare disease of the respiratory system in which lungs stiffen and get scarred, resulting breathing weakness eventually leading to death. Drug repurposing process that provides evidence for existing drugs may also be effective different diseases. In this study, we present computational pipeline having as input number gene expression datasets from early advanced stages IPF output lists repurposed ranked with novel composite score. We have...
Herein, miRNA candidates relevant to mycosis fungoides were investigated provide data on the molecular mechanisms underlying pathogenesis of disease. The expression profile skin biopsies from patients with tumor stage MF (tMF) and normal donors was compared using microarrays. Overall, 154 miRNAs found differentially expressed between tMF control cohort majority them being up-regulated (57 %). Among upregulated miRNAs, miR-3177, miR-514b-3p, miR-1267, miR-1282 exclusively detected in 70 %...
Abstract Background Improving treatment outcomes with biological therapy is a demanding current need for patients inflammatory bowel disease. Discovery of pretreatment prognostic indicators response may facilitate patient selection and increase long-term remission rates. We aimed to identify baseline mucosal gene expression profiles predictive value subsequent or failure the monoclonal antibody against integrin α4β7, vedolizumab, in active ulcerative colitis (UC). Methods Mucosal 84...
In the area of drug research, several computational repurposing studies have highlighted candidate repurposed drugs, as well clinical trial that tested/are testing drugs in different phases. To best our knowledge, aggregation proposed lists by previous has not been extensively exploited towards generating a dynamic reference matrix with enhanced resolution. fill this knowledge gap, we performed weight-modulated majority voting modes action, initial indications and targeted pathways...
Abstract Motivation Understanding the underlying biological mechanisms and respective interactions of a disease remains an elusive, time consuming costly task. Computational methodologies that propose pathway/mechanism communities reveal relationships can be great value as they help expedite process identifying how perturbations in single pathway affect other pathways. Results We present random-walks-based methodology called PathWalks, where walker crosses pathway-to-pathway network under...
The publicly available online database MelGene provides a comprehensive, regularly updated, collection of data from genetic association studies in cutaneous melanoma (CM), including random-effects meta-analysis results all eligible polymorphisms. updated version includes 192 publications with information on 1114 significantly associated polymorphisms across 280 genes, along new front-end and back-end capabilities. Various types relationships between are calculated visualized as networks. We...
We have developed ZoomOut web server in order to provide the research community with a tool for analysis, visualization and clustering of networks as super network, based on their calculated feature properties. Networks can be analysed further treated single nodes network that describe relations. Specifically, user interface is divided into three main sections: Workspace, Feature Calculations Clustering section. In Workspace section, users are able upload manage multiple processing. variety...
Abstract Understanding disease underlying biological mechanisms and respective interactions remains an elusive, time consuming costly task. The realization of computational methodologies that can propose pathway/mechanism communities reveal relationships be great value as it help expedite the process identifying how perturbations in a single pathway affect other pathways. Random walks is stochastic approach used for both efficient discovery strong connections identification formed networks....
Differential rewiring of cellular interaction networks between disease and healthy state is great importance. Through a systems level approach, malfunctioned mechanisms that are absent in the normal cases, may enlighten key-players terms genes their chains related to disease. We have developed D-Map, publicly available user-friendly web application, capable generating manipulating advanced differential by combining state-of-the-art inference reconstruction methods with random walk...
<title>Abstract</title> <bold>Background:</bold> The health benefits of the Mediterranean diet are partially attributed to polyphenols present in extra virgin olive oil (EVOO), which have been shown anti-cancer properties. However, possible effect that EVOO could on Chronic Lymphocytic Leukemia (CLL) has not fully explored. <bold>Methods: </bold>This study investigates anti-CLL activity through a computational multi-level data analysis procedure, focusing identification shared biological...
Abstract Background/aim Multiple Myeloma is the second most common blood cancer, characterised by accumulation of malignant plasma cells and production large amounts a monoclonal immunoglobulin protein, in bone marrow. The identification progression/behaviour molecular markers across stages remains scientific challenge. This work aims to provide holistic approach understanding disease progression, providing specific methodologies candidate biomarkers, able characterise distinguish state...
Systemic approaches offer a different point of view on the analysis several types molecular associations as well identification specific gene communities in cancer types. However, due to lack sufficient data needed construct networks based experimental evidence, statistical co-expression are widely used instead. Many efforts have been made exploit information hidden these networks. still need capitalize comprehensively prior knowledge encrypted into pathway and improve their efficiency...
ABSTRACT In the area of drug research, several computational repurposing studies have highlighted candidate repurposed drugs, as well drugs from clinical trial in different phases. To our knowledge, aggregation proposed lists by previous has not been extensively exploited towards generation a dynamic reference matrix regarding disease-related frequencies features such modes action, initial indications and targeted pathways. fill this knowledge gap, we performed weight-modulated majority...
Colon cancer is one of the most common types and second leading cause death due to cancer. Many efforts have been performed towards investigation molecular alterations during colon progression. However, identification stage-specific markers remains a challenge. The aim this study was develop novel computational methodology for analysis in differential gene expression pathway deregulation across stages order reveal biomarkers reinforce drug repurposing investigation.Transcriptomic datasets...
Abstract This study aims to highlight SARS-COV-2 mutations which are associated with increased or decreased viral virulence. We utilize, genetic data from all strains available GISAID and countries’ regional information such as deaths cases per million well covid-19-related public health austerity measure response times. Initial indications of selective advantage specific can be obtained calculating their frequencies across strains. By applying modelling approaches, we provide additional...
Abstract The SARS-CoV-2 pandemic is undeniably the most severe global health emergency since 1918 Influenza outbreak. Depending on its evolutionary trajectory, virus expected to establish itself as an endemic infectious respiratory disease exhibiting seasonal flare-ups. Therefore, despite unprecedented rally reach a vaccine that can offer widespread immunization, it equally important effective prevention and treatment regimens for COVID-19. Contributing this effort, we have curated analyzed...