Surviving in a sea of data: A survey of plant genome data resources and issues in building data management systems

Plant Molecular Biology

Volumn 48, Issue 1-2, 2002, Pages 59-74

  Reiser, Leonore ^a   Mueller, Lukas A ^a   Seung, Yon Rhee ^a  

^a GEOPHYSICAL LABORATORY   (United States)

Author keywords

Controlled vocabulary; Data management; Databases; Genomics; Information systems; Nomenclature

Indexed keywords

COMPUTER SOFTWARE; DATA HANDLING; DATABASE SYSTEMS; GENES; WORLD WIDE WEB;

GENOME DATA RESOURCES;

PLANTS (BOTANY);

EMBRYOPHYTA;

GENE; GENETICS; GENOME; INTERNET; NOMENCLATURE; NUCLEIC ACID DATABASE; PLANT; REVIEW;

DATABASES, NUCLEIC ACID; GENES, PLANT; GENOME, PLANT; INTERNET; PLANTS; TERMINOLOGY;

EID: 0036007668     PISSN: 01674412     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1013726308559     Document Type: Article

References (47)

1. Computational comparison of two draft sequences of the human genome
2. XML, bioinformatics and data integration
3. The genome sequence of Drosophila melanogaster
4. Basic Local Alignment Search Tool
5. The InterPro database, an integrated documentation resource for protein families, domains and functional sites
6. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
7. Gene ontology: Tool for the unification of biology. The gene ontology consortium
8. The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
9. An ontology for bioinformatics applications
10. The Pfam protein families database
11. Information retrieval from biological databases
12. The molecular biology database collection: An updated compilation of biological database resources
13. GenBank
14. The Protein Data Bank
15. Errors in genome annotation
16. Molecular analysis of the Arabidopsis pattern formation of gene GNOM: Gene structure and intragenic complementation
17. Public informatics resources for rice and other grasses
18. UK CropNet: A collection of databases and bioinformatics resources for crop plant genomics
19. Algorithms for mutant sorting: The need for phenotype vocabularies
20. Functional and structural genomics using PEDANT
21. Gene discovery using the maize genome database ZmDB
22. Creating the gene ontology resource: Design and implementation
23. The PROSITE database, its status in 1999
24. The Arabidopsis Information Resouree (TAIR): A comprehensive database and web-based information retrieval, analysis, and visualization system for a model plant
25. Bioinformatics. A user's perspective
26. An ontology for biological function based on molecular interactions
27. What we do not know about sequence analysis and sequence databases
28. Functional annotation of a full-length mouse cDNA collection
29. SCOP: A structural classification of proteins database
30. Genetic nomenclature guide. Arabidopsis thaliana
31. Conceptual modelling of genomic information
32. A guide to naming sequenced plant genes
33. Bioinformatic resources, challenges, and opportunities using Arabidopsis as a model organism in a post-genomic era
34. Web-based bioinformatic tools for Arabidopsis researchers
35. Functions of the gene products of Escherichia coli
36. Coordinated plant defense responses in Arabidopsis revealed by microarray analysis
37. Seed and molecular resources for Arabidopsis
38. Ontologies for molecular biology
39. EMB30 is essential for normal cell division, cell expansion, and cell adhesion in Arabidopsis and encodes a protein that has similarity to Sec7
40. ISYS: A decentralized, component-based approach to the integration of heterogeneous bioinformatics resources
41. A classification of tasks in bioinformatics
42. The COG database: New developments in phylogenetic classification of proteins from complete genomes
43. The sequence of the human genome
44. ACEDB: A database for genome information
45. Report of the second international nomenclature workshop. Cambridge, UK, 1-2 May 1999
46. The Kyoto encyclopedia of genes and genomes-KEGG
47. Characterization of the FIDDLE-HEAD gene of Arabidopsis reveals a link between adhesion response and cell differentiation in the epidermis