K2/kleisli and GUS: Experiments in integrated access to genomic data sources

IBM Systems Journal

Volumn 40, Issue 2, 2001, Pages 512-531

  Davidson, S B ^a   Crabtree, J ^a   Brunk, B P ^a   Schug, J ^a   Tannen, V ^a   Overton, G C ^a   Stoeckert C J , Jr ^a  

^a UNIVERSITY OF PENNSYLVANIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOMEDICAL ENGINEERING; DATA WAREHOUSES; DNA; INTERFACES (COMPUTER); THROUGHPUT; XML;

HETEROGENEOUS DATA SOURCES;

GENES;

EID: 0034957542     PISSN: 00188670     EISSN: None     Source Type: Journal    
DOI: 10.1147/sj.402.0512     Document Type: Article

References (97)

1. GenBank
2. The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
3. The EMBL nucleotide sequence database
4. DNA data bank of Japan (DDBJ) in collaboration with mass sequencing teams
5. SRS: An indexing and retrieval tool for flat file data libraries
6. Requirements for a deductive query language in the mapbase genome-mapping database
7. DBGET/LinkDB: An integrated database retrieval system
8. Kleisli, a functional query system
9. A data transformation system for biological data sources
10. An overview of the object-protocol model (OPM) and OPM data management tools
11. Comprehension syntax
12. Challenges in integrating biological data sources
13. Query processing in the TAMBIS bioinformatics source integration system
14. BioKleisli
15. Biokleisli: A digital library for biomedical researchers
16. Using a Query language to integrate biological data
17. Basic local alignment search tool
18. KEGG: Kyoto encyclopedia of genes and genomes
19. The EcoCyc and MetaCyc databases
20. The genome sequence database
21. dbEST - Database for 'expressed sequence tags'
22. The mouse genome database (MGD): Expanding genetic and genomic resources for the laboratory mouse
23. The GDB human genome data base anno 1992
24. Virtual schemas and bases
25. Specifying interdatabase dependencies in a multidatabase environment
26. Mediators in the architecture of future information systems
27. Niagaracq: A scalable continuous Query system for internet databases
28. Differential evaluation of continuai queries
29. Continual Queries for internet scale event-driven information delivery
30. Continuous Queries over append-only databases
31. The tree-to-tree editing problem
32. The tree-to-tree correction problem
33. Simple fast algorithms for the editing distance between trees and related problems
34. On the editing distance between unordered labeled trees
35. Meaningful change detection in structured data
36. View maintenance for hierarchical semistructured data
37. Making views self-maintainable for data warehousing
38. Materialized view maintenance and integrity constraint checking: Trading space for time
39. Multiple-view self-maintenance in data warehousing environments
40. Maintenance of views
41. Efficiently updating materialized views
42. Updating derived relations: Detecting irrelevant and autonomously computable updates
43. Maintaining views incrementally
44. Deriving production rules for incremental view maintenance
45. Applications of finite differencing to database integrity control and query/transaction optimization
46. Incremental recomputation of active relational expressions
47. An improved algorithm for the incremental recomputation of active relational expressions
48. Maintenance expressions for views with aggregation
49. Generalized projections: A powerful approach to aggregation
50. Maintenance of materialized views: Problems, techniques, and applications
51. Incremental updates for materialized OQL views
52. Incremental maintenance of materialized object-oriented views in multiview: Strategies and performance evaluation
53. Implementing incremental view maintenance in nested data models
54. Incremental maintenance of views with duplicates
55. Query decomposition and view maintenance for query languages for unstructured data
56. Incremental maintenance for materialized views over semistructured data
57. Graph structured views and their incremental maintenance
58. Tracing the lineage of view data in a data warehousing environment
59. Supporting fine-grained data lineage in a database visualization environment
60. Source attribution for querying against semi-structured documents
61. Meta-data support for data transformations using microsoft repository
62. Gaia: Framework annotation of genomic sequence
63. WOL: A language for database transformations and constraints
64. A Query language for XML
65. XML query language (XQL)
66. World wide web consortium (W3C)
67. World wide web consortium (W3C)
68. Keys for XML