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150 research outcomes, page 1 of 15
  • 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 . 2016
    GprotPRED: Annotation of Gα, Gβ and Gγ subunits of G-proteins using profile Hidden Markov Models (pHMMs) and application to proteomes
    Closed Access
    Authors:
    Vasiliki D. Kostiou; Margarita C. Theodoropoulou; Stavros J. Hamodrakas;
    Persistent Identifiers

    doi: 10.1016/j.bbapap.2016.02.005

    Publisher: Elsevier BV

    Heterotrimeric G-proteins form a major protein family, which participates in signal transduction. They are composed of three subunits, Gα, Gβ and Gγ. The Gα subunit is further divided in four distinct families Gs, Gi/o, Gq/11 and G12/13. The goal of this work was to det...

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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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  • software . 2017
    PRED-TAT
    Authors:
    Bagos, Pantelis;
    Publisher: bio.tools

    PRED-TAT is a tool that takes a protein sequence as input and discriminating Sec from Tat signal peptides and predicting their cleavage sites.

  • 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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  • software . 2017
    HMM-TM
    Authors:
    Bagos, Pantelis;
    Publisher: bio.tools

    HMM-TM is a tool that takes a protein sequence as input and predicts the transmembrane regions of alpha-helical

150 research outcomes, page 1 of 15