P Scordis1, D R Flower, T K Attwood. 1. School of Biological Sciences, University of Manchester, UK. scordis@bioinf.man.ac.uk
Abstract
MOTIVATION: By identifying an unknown gene or protein as a member of a known family, we can infer a wealth of previously compiled information pertinent to that family and its members. RESULTS: This paper introduces a method that classifies sequences using familial definitions from the PRINTS database, allowing progress to be made with the identification of distant evolutionary relationships. The approach makes use of the contextual information inherent in a multiple-motif method, and has the power to identify hitherto unidentified relationships in mass genome data. We exemplify our method by a comparison of database searches with uncharacterized sequences from the Caenorhabditis elegans and Saccharomyces cerevisiae genome projects. This analysis tool combines a simple, user-friendly interface with the capacity to provide an 'intelligent', biologically relevant result.
MOTIVATION: By identifying an unknown gene or protein as a member of a known family, we can infer a wealth of previously compiled information pertinent to that family and its members. RESULTS: This paper introduces a method that classifies sequences using familial definitions from the PRINTS database, allowing progress to be made with the identification of distant evolutionary relationships. The approach makes use of the contextual information inherent in a multiple-motif method, and has the power to identify hitherto unidentified relationships in mass genome data. We exemplify our method by a comparison of database searches with uncharacterized sequences from the Caenorhabditis elegans and Saccharomyces cerevisiae genome projects. This analysis tool combines a simple, user-friendly interface with the capacity to provide an 'intelligent', biologically relevant result.
Authors: T K Attwood; M D Croning; D R Flower; A P Lewis; J E Mabey; P Scordis; J N Selley; W Wright Journal: Nucleic Acids Res Date: 2000-01-01 Impact factor: 16.971
Authors: T K Attwood; M J Blythe; D R Flower; A Gaulton; J E Mabey; N Maudling; L McGregor; A L Mitchell; G Moulton; K Paine; P Scordis Journal: Nucleic Acids Res Date: 2002-01-01 Impact factor: 16.971
Authors: T K Attwood; P Bradley; D R Flower; A Gaulton; N Maudling; A L Mitchell; G Moulton; A Nordle; K Paine; P Taylor; A Uddin; C Zygouri Journal: Nucleic Acids Res Date: 2003-01-01 Impact factor: 16.971
Authors: H T Yudate; M Suwa; R Irie; H Matsui; T Nishikawa; Y Nakamura; D Yamaguchi; Z Z Peng; T Yamamoto; K Nagai; K Hayashi; T Otsuki; T Sugiyama; T Ota; Y Suzuki; S Sugano; T Isogai; Y Masuho Journal: Nucleic Acids Res Date: 2001-01-01 Impact factor: 16.971
Authors: Rajkumar Sasidharan; Tamás Nepusz; David Swarbreck; Eva Huala; Alberto Paccanaro Journal: Nucleic Acids Res Date: 2012-07-11 Impact factor: 16.971