A5067189264- Gene expression and cancer classification
- Bioinformatics and Genomic Networks
- Endoplasmic Reticulum Stress and Disease
- Adipose Tissue and Metabolism
- Epigenetics and DNA Methylation
- Microbial Metabolic Engineering and Bioproduction
- Gene Regulatory Network Analysis
- Autophagy in Disease and Therapy
- Medical Imaging Techniques and Applications
- Single-cell and spatial transcriptomics
- AI in cancer detection
- Distributed and Parallel Computing Systems
- Cell Image Analysis Techniques
- Scientific Computing and Data Management
- Biomedical Text Mining and Ontologies
- RNA modifications and cancer
- Cancer Genomics and Diagnostics
- Genomics and Phylogenetic Studies
- Advanced Proteomics Techniques and Applications
- RNA Research and Splicing
- Genetic Mapping and Diversity in Plants and Animals
- RNA and protein synthesis mechanisms
- Genetic Associations and Epidemiology
- Adipokines, Inflammation, and Metabolic Diseases
- Cutaneous Melanoma Detection and Management
Biomedical Research Foundation of the Academy of Athens
2020-2025
Academy of Athens
2021-2024
National Hellenic Research Foundation
2013-2023
University of Pretoria
2021-2023
Institute for Molecular Medicine
2023
German Cancer Research Center
2023
Heidelberg University
2023
South African Medical Research Council
2021
Kuehne + Nagel (Greece)
2020
Örebro University
2016
Glucocorticoid receptor (GR) exerts anti-inflammatory action in part by antagonizing proinflammatory transcription factors such as the nuclear factor kappa-b (NFKB). Here, we assess crosstalk of activated GR and RELA (p65, major NFKB component) global identification their binding sites target genes. We show that coactivation p65 alters repertoire regulated genes results association with novel a mutually dependent manner. These predominantly cluster are antagonized vice versa. Our data...
Rationale: Despite intense research efforts, the etiology and pathogenesis of idiopathic pulmonary fibrosis remain poorly understood.Objectives: To discover novel genes and/or cellular pathways involved in disease.Methods: We performed expression profiling disease progression a well-characterized animal model disease. Differentially expressed that were identified compared with all publicly available profiles both from human patients models. The role hypoxia-inducible factor (HIF)-1α was...
Research Article8 January 2018Open Access Transparent process Dual IRE1 RNase functions dictate glioblastoma development Stéphanie Lhomond Université de Bordeaux, France Search for more papers by this author Tony Avril INSERM U1242, "Chemistry, Oncogenesis, Stress, Signaling", Rennes 1, Rennes, Centre Lutte Contre le Cancer Eugène Marquis, Nicolas Dejeans Konstantinos Voutetakis Institute of Biology, Medicinal Chemistry & Biotechnology, NHRF, Athens, Greece Department Biochemistry University...
Transcriptomic profiling has enabled the neater genomic characterization of several cancers, among them colorectal cancer (CRC), through derivation genes with enhanced causal role and informative gene sets. However, identification small-sized signatures, which can serve as potential biomarkers in CRC, remains challenging, mainly due to great genetic heterogeneity disease. We developed exploited an analytical framework for integrative analysis CRC datasets, encompassing transcriptomic data...
Abstract IRE1α is constitutively active in several cancers and can contribute to cancer progression. Activated cleaves XBP1 mRNA, a key step production of the transcription factor XBP1s. In addition, select mRNAs through regulated IRE1α-dependent decay (RIDD). Accumulating evidence implicates regulation lipid metabolism. However, roles XBP1s RIDD this process remain ill-defined. study, transcriptome lipidome profiling triple negative breast cells subjected pharmacological inhibition reveals...
Exposure to environmental stressors, toxicants, and nutrient deficiencies can affect DNA in several ways. Some exposures cause damage alter the structure of DNA, but there is increasing evidence that same or other exposures, including those occur during fetal development utero, epigenetic effects modulate function gene expression. changes transcription are at least partially reversible (i.e., they be enzymatically reversed after cessation exposure agents), some modifications seem persist,...
With the ultimate goal of identifying robust cellulases for industrial biocatalytic conversions, we have isolated and characterized a new thermostable very halotolerant GH5 cellulase. This enzyme, termed CelDZ1, was identified by bioinformatic analysis from genome polysaccharide-enrichment culture isolate, initiated material collected an Icelandic hot spring. Biochemical characterization CelDZ1 revealed that it is glycoside hydrolase with optimal activity at 70°C pH 5.0 exhibits good...
Biocatalysts exerting activity against ester bonds have a broad range of applications in modern biotechnology. Here, we identified new esterolytic enzyme by screening metagenomic sample collected from hot spring Kamchatka, Russia. Biochemical characterization the esterase, termed EstDZ2, revealed that it is highly active medium chain fatty acid esters at temperatures between 25 and 60 °C pH values 7-8. The moderately thermostable with half-life more than six hours °C, but exhibits exquisite...
Research Article30 April 2019Open Access Transparent process Control of anterior GRadient 2 (AGR2) dimerization links endoplasmic reticulum proteostasis to inflammation Marion Maurel INSERM U1242, “Chemistry, Oncogenesis Stress Signaling”, University Rennes, France Centre de Lutte Contre le Cancer Eugène Marquis, VIB Department Medical Protein Research, UGent, Gent, Belgium Apoptosis Centre, School Natural Sciences, NUI Galway, Ireland Search for more papers by this author Joanna Obacz Tony...
Inositol-requiring enzyme 1 (IRE1) is a major mediator of the unfolded protein response (UPR), which activated upon endoplasmic reticulum (ER) stress. Tumor cells experience ER stress due to adverse microenvironmental cues, overcome by relying on IRE1 signaling as an adaptive mechanism. Herein, we report discovery structurally new inhibitors identified through structural exploration its kinase domain. Characterization in vitro and cellular models showed that they inhibit sensitize...
Biochemical network reconstructions represent valuable tools for the computational metabolic modeling of organisms that present a great biotechnological interest. An in silico multi-compartmental model central metabolism plant Brassica napus (Rapeseed) was constructed, aiming to investigate properties Brassicaceae family. This family comprises many plants with major importance energy and nutrition sector, including Arabidopsis thaliana. The utilized as objective function be subsequently...
Acquired drug resistance and metastasis in breast cancer (BC) are coupled with epigenetic deregulation of gene expression. Epigenetic drugs, aiming to reverse these aberrant transcriptional patterns sensitize cells other therapies, provide a new treatment strategy for drug-resistant tumors. Here we investigated the ability DNA methyltransferase (DNMT) inhibitor decitabine (DAC) increase sensitivity BC anthracycline antibiotic doxorubicin (DOX). Three cell lines representing different...
Protein homeostasis (a.k.a. proteostasis) is associated with the primary functions of life, and therefore evolution. However, it unclear how cellular proteostasis machines have evolved to adjust protein biogenesis needs environmental constraints. Herein, we describe a novel computational approach, based on semantic network analysis, evaluate plasticity during We show that molecular components (PN) are reliable metrics deconvolute life forms into Archaea, Bacteria Eukarya assess evolution...
Triple-negative breast cancer (TNBC) is difficult to treat and has a low five-year survival rate. In South Africa, large percentage of the population still relies on traditional plant-based medicine. To establish utility both methanol water-soluble extracts from leaves Tulbaghia violacea, cytotoxicity assays were carried out IC50 values against TNBC cell line. Cell cycle apoptosis using extracts. identify molecular compounds, present in leaf extracts, NMR spectroscopy was performed....
Prostate cancer (PCa) is an androgen receptor (AR) driven, high-incidence disease significantly contributing to mortality. PCa in need of better risk stratification at diagnosis and treatment outcomes patients high metastasis. The unfolded protein response (UPR) AR-dependent process. However, the impact UPR transducer IRE1 on biology resistance has not been defined. We use diverse pre-clinical models stress describe activity multiple stages demonstrate its involvement with poor prognosis...
This study investigates the potential of applying radial basis function (RBF) neural network architecture for classification biological microscopic images displaying lung tissue sections with idiopathic pulmonary fibrosis. For development RBF classifiers, fuzzy means clustering algorithm is utilized. method based on a partition input space and requires only short amount time to select both structure parameters classifier. The new technique was applied in acquired using microscope captured by...
Modern genomic studies, accumulation of biological information in repositories, plus novel analytical and data-mining methodologies, comprise the backbone for holistic explanation intricate phenotypes, interrogated by high-throughput experiments. Recent developments web platforms architecture, conjunction with novel, browser-centric, visualization techniques pose a powerful framework development distributed applications, which execute complex tasks, display results user-friendly interface...
Abstract The utility of blood-based omic profiles for linking environmental exposures to their potential health effects was evaluated in 649 individuals, drawn from the general population, relation tobacco smoking, an exposure with well-characterised effects. Using disease connectivity analysis, we found that combination smoking-modified, genome-wide gene (including miRNA) expression and DNA methylation predicts remarkable reliability most diseases conditions independently known be causally...