A5084654971- MicroRNA in disease regulation
- Cancer-related molecular mechanisms research
- RNA modifications and cancer
- Cancer Immunotherapy and Biomarkers
- RNA Research and Splicing
- Autophagy in Disease and Therapy
- RNA and protein synthesis mechanisms
- Genomics and Phylogenetic Studies
- Epigenetics and DNA Methylation
- Circular RNAs in diseases
- HIV-related health complications and treatments
- RNA regulation and disease
- Molecular Biology Techniques and Applications
- Machine Learning in Bioinformatics
- Cancer Diagnosis and Treatment
- Fractal and DNA sequence analysis
- RNA Interference and Gene Delivery
- Head and Neck Cancer Studies
- Cancer, Hypoxia, and Metabolism
- Sarcoma Diagnosis and Treatment
- Radiation Therapy and Dosimetry
- Genomics and Chromatin Dynamics
- Tryptophan and brain disorders
- Radiomics and Machine Learning in Medical Imaging
- Virus-based gene therapy research
University of Thessaly
2016-2025
Pasteur Hellenic Institute
2016-2025
Institut Pasteur
2019-2024
Alexander Fleming Biomedical Sciences Research Center
2008-2016
Athena Research and Innovation Center In Information Communication & Knowledge Technologies
2015
National Technical University of Athens
2009-2014
RMIT University
2014
Metropolitan Hospital
2014
Institute of Nuclear and Particle Physics
2013
National and Kapodistrian University of Athens
2013
The functional characterization of miRNAs is still an open challenge.Here, we present DIANA-miRPath v3.0 (http://www.microrna.gr/miRPathv3)an online software suite dedicated to the assessment miRNA regulatory roles and identification controlled pathways.The new miRPath web server renders possible annotation one or more using standard (hypergeometric distributions), unbiased empirical distributions and/or meta-analysis statistics.DIANA-miRPath database functionality have been significantly...
MicroRNAs (miRNAs) are small endogenous RNA molecules that regulate gene expression through mRNA degradation and/or translation repression, affecting many biological processes. DIANA-microT web server (http://www.microrna.gr/webServer) is dedicated to miRNA target prediction/functional analysis, and it being widely used from the scientific community, since its initial launch in 2009. v5.0, new version of microT server, has been significantly enhanced with an improved prediction algorithm,...
MicroRNAs (miRNAs) are endogenous noncoding RNAs, which negatively regulate gene expression. To determine genomewide miRNA DNA copy number abnormalities in cancer, 283 known human genes were analyzed by high-resolution array-based comparative genomic hybridization 227 ovarian breast and melanoma specimens. A high proportion of loci containing exhibited alterations cancer (37.1%), (72.8%), (85.9%), where observed >15% tumors considered significant for each gene. We identified 41 with changes...
DIANA-TarBase v8 (http://www.microrna.gr/tarbase) is a reference database devoted to the indexing of experimentally supported microRNA (miRNA) targets. Its eighth version first >1 million entries, corresponding ∼670 000 unique miRNA-target pairs. The interactions are by >33 experimental methodologies, applied ∼600 cell types/tissues under ∼451 conditions. It integrates information on cell-type specific miRNA–gene regulation, while hundreds thousands miRNA-binding locations reported. TarBase...
A new paradigm of gene expression regulation has emerged recently with the discovery microRNAs (miRNAs). Most, if not all, miRNAs are thought to control expression, mostly by base pairing miRNA-recognition elements (MREs) found in their messenger RNA (mRNA) targets. Although a large number human have been reported, many mRNA targets remain unknown. Here we used combined bioinformatics and experimental approach identify important rules governing miRNA-MRE recognition that allow prediction...
Primary transcripts of certain microRNA (miRNA) genes are subject to RNA editing that converts adenosine inosine. However, the importance miRNA remains largely undetermined. Here we report tissue-specific adenosine-to-inosine miR-376 cluster leads predominant expression edited isoform RNAs. One highly site is positioned in middle 5′-proximal half “seed” region critical for hybridization miRNAs targets. We provide evidence silences specifically a different set genes. Repression phosphoribosyl...
microRNAs (miRNAs) are short non-coding RNA species, which act as potent gene expression regulators. Accurate identification of miRNA targets is crucial to understanding their function. Currently, hundreds thousands miRNA:gene interactions have been experimentally identified. However, this wealth information fragmented and hidden in manuscripts raw next-generation sequencing data sets. DIANA-TarBase was initially released 2006 it the first database aiming catalog published validated...
MicroRNAs (miRNAs) are ~22-nt RNA segments that involved in the regulation of protein expression primarily by binding to one or more target sites on an mRNA transcript and inhibiting translation. likely factor into multiple developmental pathways, mechanisms gene regulation, underlie array inherited disease processes phenotypic determinants. Several computational programs exist predict miRNA targets mammals, fruit flies, worms, plants. However, date, there is no systematic collection...
microRNAs (miRNAs) are short non-coding RNAs (ncRNAs) that act as post-transcriptional regulators of coding gene expression. Long (lncRNAs) have been recently reported to interact with miRNAs. The sponge-like function lncRNAs introduces an extra layer complexity in the miRNA interactome. DIANA-LncBase v1 provided a database experimentally supported and silico predicted Recognition Elements (MREs) on lncRNAs. second version LncBase (www.microrna.gr/LncBase) presents extensive collection...
Computational microRNA (miRNA) target prediction is one of the key means for deciphering role miRNAs in development and disease. Here, we present DIANA-microT web server as user interface to 3.0 miRNA algorithm. The provides extensive information predicted miRNA:target gene interactions with a user-friendly interface, providing connectivity online biological resources. Target functions may be elucidated through automated bibliographic searches functional accessible Kyoto Encyclopedia Genes...
As the relevant literature and number of experiments increase at a super linear rate, databases that curate collect experimentally verified microRNA (miRNA) targets have gradually emerged. These attempt to provide efficient access this wealth experimental data, which is scattered in thousands manuscripts. Aim TarBase 6.0 (http://www.microrna.gr/tarbase) face challenge by providing significant available miRNA derived from all contemporary techniques (gene specific high-throughput), while...
MicroRNAs (miRNAs) are an abundant class of small noncoding RNAs that function as negative gene regulators. miRNA deregulation is involved in the initiation and progression human cancer; however, underlying mechanism its contributions to genome-wide transcriptional changes cancer still largely unknown. We studied epithelial ovarian by integrative genomic approach, including microarray (n = 106), array-based comparative hybridization 109), cDNA 76), tissue array 504). expression markedly...
MicroRNAs (miRNAs) are key regulators of diverse biological processes and their functional analysis has been deemed central in many research pipelines. The new version DIANA-miRPath web server was redesigned from the ground-up. user DNA Intelligent Analysis (DIANA) v2.0 can now utilize miRNA targets predicted with high accuracy based on DIANA-microT-CDS and/or experimentally verified TarBase v6; combine results merging meta-analysis algorithms; perform hierarchical clustering miRNAs pathways...
Abstract Motivation: Experimental evidence has accumulated showing that microRNA (miRNA) binding sites within protein coding sequences (CDSs) are functional in controlling gene expression. Results: Here we report a computational analysis of such miRNA target sites, based on features extracted from existing mammalian high-throughput immunoprecipitation and sequencing data. The is performed independently for the CDS 3′-untranslated regions (3′-UTRs) reveals different sets models two regions....
TarBase5.0 is a database which houses manually curated collection of experimentally supported microRNA (miRNA) targets in several animal species central scientific interest, plants and viruses. MiRNAs are small non-coding RNA molecules that exhibit an inhibitory effect on gene expression, interfering with the stability translational efficiency targeted mature messenger RNAs. Even though computational programs exist to predict miRNA targets, there need for comprehensive description...
Recently, the attention of research community has been focused on long non-coding RNAs (lncRNAs) and their physiological/pathological implications. As number experiments increase in a rapid rate transcriptional units are better annotated, databases indexing lncRNA properties function gradually become essential tools to this process. Aim DIANA-LncBase (www.microrna.gr/LncBase) is reinforce researchers' attempts unravel microRNA (miRNA)–lncRNA putative functional interactions. This study...
MicroRNAs are small endogenously expressed non-coding RNA molecules that regulate target gene expression through translation repression or messenger degradation. MicroRNA regulation is performed pairing of the microRNA to sites in protein coding genes. Since experimental identification miRNA genes poses difficulties, computational prediction one key means deciphering role microRNAs development and disease.DIANA-microT 3.0 an algorithm for which based on several parameters calculated...
Primary transcripts of certain microRNA (miRNA) genes (pri-miRNAs) are subject to RNA editing that converts adenosine inosine (A-->I editing). However, the frequency pri-miRNA and fate edited pri-miRNAs remain largely be determined. Examination already known sites indicated residues UAG triplet sequence might more frequently. In present study, therefore, we conducted a large-scale survey human containing sequence. By direct sequencing RT-PCR products corresponding pri-miRNAs, examined 209...
Abstract DIANA-LncBase v3.0 (www.microrna.gr/LncBase) is a reference repository with experimentally supported miRNA targets on non-coding transcripts. Its third version provides approximately half million entries, corresponding to ∼240 000 unique tissue and cell type specific miRNA–lncRNA pairs. This compilation of interactions derived from the manual curation publications analysis >300 high-throughput datasets. are by 14 experimental methodologies, applied 243 distinct types tissues in...
Abstract Summary: DIANA-mirPath is a web-based computational tool developed to identify molecular pathways potentially altered by the expression of single or multiple microRNAs. The software performs an enrichment analysis microRNA target genes comparing each set targets all known KEGG pathways. combinatorial effect co-expressed microRNAs in modulation given pathway taken into account simultaneous graphical output program provides overview parts modulated microRNAs, facilitating...
RNAcentral is a comprehensive database of non-coding RNA (ncRNA) sequences that provides single access point to 44 resources and >18 million ncRNA from wide range organisms types. now also includes secondary (2D) structure information for >13 sequences, making the world's largest 2D database. The diagrams are displayed using R2DT, new visualization method uses consistent, reproducible recognizable layouts related RNAs. sequence similarity search has been updated with faster interface...