Database Annotation in Molecular Biology
Principles and Practice
Published on 1. September 2005
266 pages
978-0-470-85685-7 (ISBN)
Description
Two factors dominate current molecular biology: the amount of rawdata is increasing very rapidly and successful applications inbiomedical research require carefully curated and annotateddatabases. The quality of the experimental data -- especiallynucleic acid sequences -- is satisfactory; however, annotationsdepend on features inferred from the data rather than measureddirectly, for instance the identification of genes in genomesequences. It is essential that these inferences are as accurate aspossible and this requires human intervention.
With the recognition of the importance of accurate databaseannotation and the requirement for individuals with particularconstellations of skills to carry it out, annotators are emergingas specialists within the profession of bioinformatics. This bookcompiles information about annotation -- its current status, whatis required to improve it, what skills must be brought to bear ondatabase curation and hence what is the proper training forannotators.
The book should be essential reading for all people working onbiological databases, both biologists and computer scientists. Itwill also be of interest to all users of such databases, includingmolecular biologists, geneticists, protein chemists, clinicians anddrug developers.
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06/2005
Wiley
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11/2004
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Wiley
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Person
Arthur M. Lesk, The Pennsylvania State University, U.S.A.
Content
Preface.
List of Contributors.
1. Annotation and Databases: Status and Prospects (M.Hoebeke, H. Chiapello, J.-F. Gibrat, Ph. Bessieres and J.Garnier).
I: THE DATABANKS.
2. Survey of Sequence Databases: Archival Projects (M.Magrane, M. Garcia-Pastor and R. Apweiler).
3. Survey of Sequence Databases: Derived Databases (M.Pruess, N. Mulder and R. Apweiler).
4. Databanks of Macromolecular Structure (H.J. Bernsteinand F.C. Bernstein).
5. Gene Expression Databases (H. Parkinson).
II: THE BASIS OF ANNOTATION.
6. Taxonomy: a Moving Target for Sequence Data (M.I.Krichevsky).
7. Genomics and Proteomics: Design and Sources ofAnnotation (K. Mayer and G. Mannhaupt).
8. Annotation of Protein Sequences (W.C. Barker and C.H.Wu).
9. Issues in the Annotation of Protein Structures (G.J.Swaminathan, J. Tate, R. Newman, A. Hussain, J. Ionides, K. Henrickand S. Velankar).
10. Classification of Protein Function (A.M. Lesk, H.Parkinson and J.C. Whisstock).
III: DATABASE DESIGN AND INTEGRATION.
11. Information Flow and Data Integration of Databanks(C.H. Wu and W.C. Barker).
12. Models of Database Interconnectivity(G.J.L.Kemp).
13. The European Bioinformatics Institute MacromolecularStructure Relational Database Technology (H. Boutselakis, D.Dimitriopoulos, K. Henrick, J. Ionides, M. John, P.A. Keller, P.McNeil, J. Pineda and A. Suarez-Uruena).
IV: CONCLUSIONS AND PROSPECTS.
14. Looking Around, Looking Ahead (A.M. Lesk).
Index.
