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Browsing Computational Biology and Bioinformatics by Issue Date

Browsing Computational Biology and Bioinformatics by Issue Date

Now showing items 1-20 of 77

Application of metabolomics to plant genotype discrimination using statistics and machine learning

Taylor, Janet; King, Ross Donald; Altmann, Thomas; Fiehn, Oliver (2002)

MOTIVATION: Metabolomics is a post genomic technology which seeks to provide a comprehensive profile of all the metabolites present in a biological sample. This complements the mRNA profiles provided by microarrays, and ...
Adaptive denoising in spectral analysis by genetic programming

Rowland, Jem; Taylor, Janet (2002)

This paper relates to supervised interpretation of the infrared analytical spectra of complex biological samples. The aim is to produce a model that can predict the value of a measurand of interest, such as the concentration ...
Primary and secondary metabolism, and post-translational protein modifications, as portrayed by proteomic analysis of Streptomyces coelicolor

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 ...
Learning Qualitative Models in the Presence of Noise

King, Ross Donald; Coghill, George; Garrett, Simon (2002)
New approach to pharmacophore mapping and QSAR analysis using inductive logic programming. Application to thermolysin inhibitors and glycogen phosphorylase b inhibitors

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 ...
The use of Inductive Logic Programming in drug design

King, Ross Donald; Enot, David (2002)
How well do we understand the clusters found in microarray data?

Clare, Amanda; King, Ross Donald (2002)

We wished to quantify the state-of-the-art of our understanding of clusters in microarray data. To do this we systematically compared the clusters produced on sets of microarray data using a representative set of clustering ...
Machine learning of functional class from phenotype data

Clare, Amanda; King, Ross Donald (2002)

Motivation: Mutant phenotype growth experiments are an important novel source of functional genomics data which have received little attention in bioinformatics. We applied supervised machine learning to the problem of ...
Interpreting Analytical Spectra with Evolutionary Computation

Rowland, Jem (Morgan Kaufmann, 2002)
Homology Induction: the use of machine learning to improve sequence similarity searches

Karwath, Andreas; King, Ross Donald (2002-04-23)

Background: The inference of homology between proteins is a key problem in molecular biology The current best approaches only identify ~50% of homologies (with a false positive rate set at 1/ 1000). Results: We present ...
Data mining the yeast genome in a lazy functional language

Clare, Amanda; King, Ross Donald (2003)

Critics of lazy functional languages contend that the languages are only suitable for toy problems and are not used for real systems. We present an application (PolyFARM) for distributed data mining in relational bioinformatics ...
Generalisation and Model Selection in Supervised Learning with Evolutionary Computation

Rowland, Jem (2003)

EC-based supervised learning has been demonstrated to be an effective approach to forming predictive models in genomics, spectral interpretation, and other problems in modern biology. Longer-established methods such as PLS ...
Application of Inductive Logic Programming to Structure-Based Drug Design

Enot, David; King, Ross Donald (2003)
Structure based drug design with inductive logic programming

King, Ross Donald; Enot, David (2003)
Predicting gene function in Saccharomyces cerevisiae

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 ...
Statistical Evaluation of the Predictive Toxicology Challenge 2000-2001

King, Ross Donald; Toivonen, H.; Srinivasan, A.; Kramer, S.; Helma, C. (2003)

Motivation: The development of in silico models to predict chemical carcinogenesis from molecular structure would help greatly to prevent environmentally caused cancers. The Predictive Toxicology Challenge (PTC) competition ...
An Empirical Study of the Use of Relevance Information in Inductive Logic Programming

King, Ross Donald; Srinivasan, A.; Bain, M. E. (2003-07)

Inductive Logic Programming (ILP) systems constructmodels for data using domain-specific background information. When using these systems, it is typically assumed that sufficient human expertise is at hand to rule out ...
Model Selection Methodology in Supervised Learning with Evolutionary Computation

Rowland, Jem (2003-11)

The expressive power, powerful search capability, and the explicit nature of the resulting models make evolutionary methods very attractive for supervised learning applications in bioinformatics. However, their characteristics ...
Scalable Multi-Relational Association Mining

Clare, Amanda; Williams, Hugh E.; Lester, Nicholas (2004)

We propose the new RADAR technique for multi-relational data mining. This permits the mining of very large collections and provides a new technique for discovering multi-relational associations. Results show that RADAR is ...
Confirmation of Data Mining Based Predictions of Protein Function

King, Ross Donald; Wise, P. H.; Clare, Amanda (2004)

Motivation: A central problem in bioinformatics is the assignment of function to sequenced open reading frames (ORFs). The most common approach is based on inferred homology using a statistically based sequence similarity ...

Now showing items 1-20 of 77

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