Browsing Bioinformatics and Computational Biology Group by Title

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Browsing Bioinformatics and Computational Biology Group by Title

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  • Marchand-Geneste, N.; Watson, K. A.; Alsberg, B.; King, Ross Donald (2002)
    A key problem in QSAR is the selection of appropriate descriptors to form accurate regression equations for the compounds under study. Inductive logic programming (ILP) algorithms are a class of machine-learning algorithms ...
  • 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 ...
  • King, Ross Donald; Garrett, Simon Martin; Coghill, George (2005-01-12)
    Motivation: Perhaps the greatest challenge of modern biology is to develop accurate in silico models of cells. To do this we require computational formalisms for both simulation (how according to the model the state of the ...
  • Soldatova, Larisa; Clare, Amanda; Sparkes, Andrew; King, Ross Donald (2006)
    Motivation: A Robot Scientist is a physically implemented robotic system that can automatically carry out cycles of scientific experimentation. We are commissioning a new Robot Scientist designed to investigate gene function ...
  • 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 ...
  • King, Ross Donald; Soldatova, Larisa (2006-12-22)
    The formal description of experiments for efficient analysis, annotation and sharing of results is a fundamental part of the practice of science. Ontologies are required to achieve this objective. A few subject-specific ...
  • Soldatova, Larisa; Schierz, Amanda; King, Ross Donald (2007-04)
    The Brookhaven Protein Data Bank was once a pioneering database, but its organization of structural data is now outdated and in need of an upgrade.
  • 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 ...
  • Hall, Robert D.; Beale, Michael H.; Fiehn, Oliver; Hardy, Nigel; Sumner, Lloyd W.; Bino, Raoul J. (2002-07)
    After the establishment of technologies for high-throughput DNA sequencing (genomics), gene expression analysis (transcriptomics), and protein analysis (proteomics), the remaining functional genomics challenge is that of ...
  • King, Ross Donald; Ouali, M. (2004)
    Poly-transformation is the extension of the idea of ensemble learning to the transformation step of Knowledge Discovery in Databases (KDD). In poly-transformation multiple transformations of the data are made before learning ...
  • Hall, Robert D.; Hardy, Nigel W. (Humana Press- Springer, 2012-02-17)
    The technologies being developed for the large-scale, essentially unbiased analysis of the small molecules present in organic extracts made from plant materials are greatly changing our way of thinking about what is possible ...
  • King, Ross Donald; Clare, Amanda (2003)
    Motivation S. cerevisiae is one of the most important model organisms, and has has been the focus of over a century of study. In spite of these efforts, 40% of its open reading frames (ORFs) remain classified as having ...
  • Van Calster, Ben; Timmerman, Dirk; Lu, Chuan; Suykens, Johan A. K.; Valentin, Lil; Van Holsbeke, Caroline; Amant, Frédéric; Vergote, Ignace; Van Huffel, Sabine (2007-05)
    Objectives To develop flexible classifiers that predict malignancy in adnexal masses using a large database from nine centers. Methods The database consisted of 1066 patients with at least one persistent adnexal mass for ...
  • Hesketh, A. R.; Chandra, G.; Shaw, Adrian; Rowland, Jem; Kell, Douglas B.; Bibb, M. J.; Chater, K. F. (2002)
    The newly sequenced genome of Streptomyces coelicolor is estimated to encode 7825 theoretical proteins. We have mapped approximately 10% of the theoretical proteome experimentally using two-dimensional gel electrophoresis ...
  • Sumner, Lloyd W.; Amberg, Alexander; Barrett, Dave; Beale, Michael H.; Beger, Richard; Daykin, Clare; Fan, Teresa; Fiehn, Oliver; Goodacre, Royston; Griffin, Julian L.; Hankemeier, Thomas; Hardy, Nigel; Harnly, James; Higashi, Richard; Kopka, Joachim; Lane, Andrew N.; Lindon, John C.; Marriott, Philip; Nicholls, Andrew W.; Reily, Michael D.; Thaden, John J.; Viant, Mark R. (2007-09-01)
    There is a general consensus that supports the need for standardized reporting of metadata or information describing large-scale metabolomics and other functional genomics data sets. Reporting of standard metadata provides ...
  • 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 ...
  • Van Holsbeke, Caroline; Van Calster, Ben; Testa, Antonia C.; Domali, Ekaterini; Lu, Chuan; Van Huffel, Sabine; Valentin, Lil; Timmerman, Dirk (2009-01-15)
    PURPOSE: To prospectively test the mathematical models for calculation of the risk of malignancy in adnexal masses that were developed on the International Ovarian Tumor Analysis (IOTA) phase 1 data set on a new data set ...
  • Rowland, Jeremy John; Broadhurst, David I.; Ellis, David I.; Goodacre, Royston (Wageningen Academic Publishers, 2005)
  • Schierz, Amanda; Soldatova, Larisa; King, Ross Donald (2007-08)

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