Bioinformatics and Computational Biology Group

 

Bioinformatics and Computational Biology Group

The Bioinformatics and Computational Biology Group conducts research in areas including:

  • data analysis of large scale biological data
  • formalisation of biological data
  • systems biology
  • biomedical informatics
  • genetics
  • pharmacogenomics

Recent Submissions

  • Džeroski, Sašo; Blockeel, Hendrik; Clare, Amanda; Leander, Schietgat; Struyf, Jan (Springer Nature, 2006)
    Hierarchical multilabel classification (HMC) is a variant of classification where instances may belong to multiple classes organized in a hierarchy. The task is relevant for several application domains. This paper presents ...
  • Rubtsov, Denis V.; Jenkins, Helen; Ludwig, Christian; Easton, John; Viant, Mark R.; Günther, Ulrich; Griffin, Julian L.; Hardy, Nigel (2007-09-01)
    The amount of data generated by NMR-based metabolomic experiments is increasing rapidly. Furthermore, diverse techniques increase the need for informative and comprehensive meta-data. These factors present a challenge in ...
  • Spasić, Irena; Dunn, Warwick B.; Velarde, Giles; Tseng, Andy; Jenkins, Helen; Hardy, Nigel; Oliver, Stephen G.; Kell, Douglas B. (2006-06-05)
    Background The genome sequencing projects have shown our limited knowledge regarding gene function, e.g. S. cerevisiae has 5–6,000 genes of which nearly 1,000 have an uncertain function. Their gross influence on the behaviour ...
  • Liakata, Maria; Soldatova, Larisa N. (2009-04-29)
  • Liakata, Maria (Prifysgol Aberystwyth, 2010-09-13)
  • Liakata, Maria; Saha, Shyamasree; Dobnik, Simon; Batchelor, Colin; Rebholz-Schuhmann, Dietrich (2012-04-01)
    Motivation: Scholarly biomedical publications report on the findings of a research investigation. Scientists use a well-established discourse structure to relate their work to the state of the art, express their own ...
  • Hoehndorf, Robert; Dumontier, Michel; Gkoutos, Georgios (2012-08-15)
    Motivation: Many complex diseases are the result of abnormal pathway functions instead of single abnormalities. Disease diagnosis and intervention strategies must target these pathways while minimizing the interference ...
  • Mungall, Christopher J.; Gkoutos, Georgios; Smith, Cynthia L.; Haendel, Melissa A.; Lewis, Suzanna E.; Ashburner, Michael (2010-01-08)
    Phenotype ontologies are typically constructed to serve the needs of a particular community, such as annotation of genotype-phenotype associations in mouse or human. Here we demonstrate how these ontologies can be improved ...
  • Hoehndorf, Robert; Schofield, Paul N.; Gkoutos, Georgios (2011-10)
    Phenotypes are investigated in model organisms to understand and reveal the molecular mechanisms underlying disease. Phenotype ontologies were developed to capture and compare phenotypes within the context of a single ...
  • Mungall, Christopher J.; Torniai, Carlo; Gkoutos, Georgios V.; Lewis, Suzanna E.; Haendel, Melissa A. (2012-01-31)
    We present Uberon, an integrated cross-species ontology consisting of over 6,500 classes representing a variety of anatomical entities, organized according to traditional anatomical classification criteria. The ontology ...
  • King, Ross Donald; Liakata, Maria; Lu, Chuan; Oliver, Stephen G.; Soldatova, Larisa Nikolaevna (2011-10-07)
    The reuse of scientific knowledge obtained from one investigation in another investigation is basic to the advance of science. Scientific investigations should therefore be recorded in ways that promote the reuse of the ...
  • Guo, Yufan; Korhonen, Anna; Liakata, Maria; Silins, Ilona; Hogberg, Johan; Stenius, Ulla (2011-03-08)
    Background Many practical tasks in biomedicine require accessing specific types of information in scientific literature; e.g. information about the results or conclusions of the study in question. Several schemes have been ...
  • Sparkes, Andrew Charles; Clare, Amanda Janet (2012-06-29)
    Motivation: Modern automated laboratories need substantial data management solutions to both store and make accessible the details of the experiments they perform. To be useful, a modern Laboratory Information Management ...
  • Alsberg, Bjorn; Clare, Amanda Janet (2010-07)
    As research projects grow in size, there is a tendency for the number of management tasks to increase even faster. There are many different data objects and relations which need to be managed as part of the whole project: ...
  • Dobson, Paul D.; Smallbone, Kieran; Jameson, Daniel; Simeonidis, Evangelos; Lanthaler, Karin; Pir, Pınar; Lu, Chuan; Swainston, Neil; Dunn, Warwick B.; Fisher, Paul; Hull, Duncan; Brown, Marie; Oshota, Olusegun; Stanford, Natalie J.; Kell, Douglas B.; King, Ross Donald; Oliver, Stephen G.; Stevens, Robert D.; Mendes, Pedro (2010-10-28)
    Background. To date, several genome-scale network reconstructions have been used to describe the metabolism of the yeast Saccharomyces cerevisiae, each differing in scope and content. The recent community-driven reconstruction, ...
  • Pir, Pinar; Dobson, Paul D.; Smallbone, Kieran; Mendes, Pedro; King, Ross Donald; Lu, Chuan; Oliver, Stephen G.; Clare, Amanda (2010-10)
    Background: Genome-scale metabolic network models have been widely used for analysing the cellular behaviour of organisms both qualitatively and quantitatively. An iterative semi-automated procedure for model validation ...
  • Qi, Da; King, Ross D.; Hopkins, Andrew L.; Bickerton, G.; Richard, J.; Soldatova, Larisa N. (2010)
    The paper presents an ontology for the description of Drug Discovery Investigation (DDI). This has been developed through the use of a Robot Scientist “Eve”, and in consultation with industry. DDI aims to define the principle ...
  • Wilson, Myra S.; Giagkos, Alexandros (2010-08-25)
    We introduce a new bee-inspired routing protocol for mobile ad hoc networks. Emphasis is given to the ability of bees to evaluate paths by considering several quality factors. In order to achieve similar behaviour in the ...
  • Lu, C.; Whelan, KE.; King, RD. (European Commission, 2010-05-04)
    One of the objectives in the Unicellsys project is to develop computational tools to automatically modify the metabolic pathway models based on the experimental data and the bioinformatics information available. The machine ...
  • Lu, Chuan; King, Ross Donald (2010-03)
    We present an automated procedure of identifying and filling of reaction gaps in genome-scale metabolic networks within the framework of flux balance analysis. This computational approach exploits the constraint-based ...

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