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Open Access ELIXIR GR

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Open Access ELIXIR GR

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87 research outcomes, page 1 of 9
  • publication . Article . 2009
    DIANA-mirPath: Integrating human and mouse microRNAs in pathways
    Open Access
    Authors:
    Papadopoulos, G. L.; Alexiou, P.; Maragkakis, M.; Reczko, M.; Hatzigeorgiou, A. G.;
    Persistent Identifiers

    doi: 10.1093/bioinformatics/btp299

    Publisher: Oxford University Press (OUP)

    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 of multiple microRNA target genes comparing each set of ...

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  • publication . Article . 2019
    An intrinsically disordered proteins community for ELIXIR [version 1; peer review: 2 approved]
    Open Access English
    Authors:
    Norman E. Davey; M. Madan Babu; Martin Blackledge; Alan Bridge; Salvador Capella-Gutierrez; Zsuzsanna Dosztanyi; Rachel Drysdale; Richard J. Edwards; Arne Elofsson; Isabella C. Felli; ...
    Publisher: F1000 Research Ltd

    Intrinsically disordered proteins (IDPs) and intrinsically disordered regions (IDRs) are now recognised as major determinants in cellular regulation. This white paper presents a roadmap for future e-infrastructure developments in the field of IDP research within the ELI...

  • publication . Article . 2009
    miRGen 2.0: a database of microRNA genomic information and regulation
    Open Access English
    Authors:
    Panagiotis Alexiou; Thanasis Vergoulis; Martin Gleditzsch; George Prekas; Theodore Dalamagas; Molly Megraw; Ivo Grosse; Timos Sellis; Artemis G. Hatzigeorgiou;
    Persistent Identifiers

    doi: 10.1093/nar/gkp888

    pmc: PMC2808909

    pmid: 19850714

    Publisher: Oxford University Press

    MicroRNAs are small, non-protein coding RNA molecules known to regulate the expression of genes by binding to the 3 0 UTR region of mRNAs. MicroRNAs are produced from longer transcripts which can code for more than one mature miRNAs. miRGen 2.0 is a database that aims t...

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  • publication . Article . Other literature type . 2015
    Orchestrating high-throughput genomic analysis with Bioconductor.
    Open Access English
    Authors:
    Huber, Wolfgang; Carey, Vincent J; Gentleman, Robert; Anders, Simon; Carlson, Marc; Carvalho, Benilton S; Bravo, Hector Corrada; Davis, Sean; Gatto, Laurent; Girke, Thomas; ...
    Persistent Identifiers

    doi: 10.1038/nmeth.3252

    handle: 2078.1/219742

    pmc: PMC4509590

    pmid: 25633503

    Country: Belgium

    Bioconductor is an open-source, open-development software project for the analysis and comprehension of high-throughput data in genomics and molecular biology. The project aims to enable interdisciplinary research, collaboration and rapid development of scientific softw...

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  • publication . Article . 2015
    Future opportunities and trends for e-infrastructures and life sciences: going beyond the grid to enable life science data analysis
    Open Access
    Authors:
    Duarte, Afonso M S; Psomopoulos, Fotis E; Blanchet, Christophe; Bonvin, Alexandre M J J; Corpas, Manuel; Franc, Alain; Jimenez, Rafael C; de Lucas, Jesus M; Nyrönen, Tommi; Sipos, Gergely; ...
    Persistent Identifiers

    doi: 10.3389/fgene.2015.00197

    handle: 10261/139976 , 1874/380951

    pmc: PMC4477178

    pmid: 26157454

    Publisher: Frontiers Media
    Countries: France, France, France, France, France, Netherlands
    Project: WT , EC | BIOMEDBRIDGES (284209), EC | WENMR (261572), FCT | EXPL/BBB-BEP/1356/2013 (EXPL/BBB-BEP/1356/2013), EC | EGI-INSPIRE (261323), FCT | SFRH/BPD/78075/2011 (SFRH/BPD/78075/2011), AKA | ELIXIR - Data for Life Eu... (273655)

    With the increasingly rapid growth of data in life sciences we are witnessing a major transition in the way research is conducted, from hypothesis-driven studies to data-driven simulations of whole systems. Such approaches necessitate the use of large-scale computationa...

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  • publication . Article . 2019
    An intrinsically disordered proteins community for ELIXIR.
    Open Access
    Authors:
    Davey, Norman E.; Babu, M. Madan; Blackledge, Martin; Bridge, Alan; Capella-Gutierrez, Salvador; Dosztanyi, Zsuzsanna; Drysdale, Rachel; Edwards, Richard J.; Elofsson, Arne; Felli, Isabella C.; ...
    Persistent Identifiers

    doi: 10.12688/f1000research.20136.1 , 10.17863/cam.47865

    pmc: PMC6880265

    Countries: Belgium, United Kingdom, United Kingdom, Cyprus, Netherlands, Spain
    Project: UKRI | Bioinformatics Resources ... (BB/P024092/1), NIH | UniProt supporting an int... (3U24HG007822-05S1), WT | Protein Data Bank in Euro... (104948), EC | IDPfun (778247)

    Intrinsically disordered proteins (IDPs) and intrinsically disordered regions (IDRs) are now recognised as major determinants in cellular regulation. This white paper presents a roadmap for future e-infrastructure developments in the field of IDP research within the ELI...

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  • publication . Article . 2021
    Population Genomics Insights into the First Wave of COVID-19
    Open Access
    Authors:
    Maria Vasilarou; Nikolaos Alachiotis; Joanna Garefalaki; Apostolos Beloukas; Pavlos Pavlidis;
    Persistent Identifiers

    doi: 10.3390/life11020129

    pmc: PMC7914631

    pmid: 33562321

    Country: Netherlands

    Full-genome-sequence computational analyses of the SARS-coronavirus (CoV)-2 genomes allow us to understand the evolutionary events and adaptability mechanisms. We used population genetics analyses on human SARS-CoV-2 genomes available on 2 April 2020 to infer the mutati...

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  • publication . Article . 2016
    ePGA: A Web-Based Information System for Translational Pharmacogenomics
    Open Access
    Authors:
    Lakiotaki, Kleanthi; Kartsaki, Evgenia; Kanterakis, Alexandros; Katsila, Theodora; Patrinos, George P.; Potamias, George;
    Persistent Identifiers

    doi: 10.1371/journal.pone.0162801

    pmc: PMC5025168

    pmid: 27631363

    Publisher: Public Library of Science (PLoS)
    Project: EC | RD-CONNECT (305444), WT

    One of the challenges that arise from the advent of personal genomics services is to efficiently couple individual data with state of the art Pharmacogenomics (PGx) knowledge. Existing services are limited to either providing static views of PGx variants or applying a s...

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  • publication . Article . 2017
    Variant Ranker: a web-tool to rank genomic data according to functional significance
    Open Access English
    Authors:
    John Alexander; Dimitris Mantzaris; Marianthi Georgitsi; Petros Drineas; Peristera Paschou;
    Persistent Identifiers

    doi: 10.1186/s12859-017-1752-3

    pmc: PMC5514526

    pmid: 28716001

    Publisher: BioMed Central
    Country: United Kingdom
    Project: EC | TS-EUROTRAIN (316978), EC | EMTICS (278367)

    Background: The increasing volume and complexity of high-throughput genomic data make analysis and prioritization of variants difficult for researchers with limited bioinformatics skills. Variant Ranker allows researchers to rank identified variants and determine the mo...

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  • publication . Article . 2014
    Systematic integration of RNA-Seq statistical algorithms for accurate detection of differential gene expression patterns
    Open Access
    Authors:
    Panagiotis Moulos; Pantelis Hatzis;
    Persistent Identifiers

    doi: 10.1093/nar/gku1273

    pmc: PMC4344485

    pmid: 25452340

    Publisher: Oxford University Press (OUP)

    RNA-Seq is gradually becoming the standard tool for transcriptomic expression studies in biological research. Although considerable progress has been recorded in the development of statistical algorithms for the detection of differentially expressed genes using RNA-Seq ...

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87 research outcomes, page 1 of 9