The DOI matches its Crossref record; 1 of the 1 references it cites were found in a registry or an index.
EnsMart: A Generic System for Fast and Flexible Access to Biological Data
Open accessAbstract
The EnsMart system (www.ensembl.org/EnsMart) provides a generic data warehousing solution for fast and flexible querying of large biological data sets and integration with third-party data and tools. The system consists of a query-optimized database and interactive, user-friendly interfaces. EnsMart has been applied to Ensembl, where it extends its genomic browser capabilities, facilitating rapid retrieval of customized data sets. A wide variety of complex queries, on various types of annotations, for numerous species are supported. These can be applied to many research problems, ranging from SNP selection for candidate gene screening, through cross-species evolutionary comparisons, to microarray annotation. Users can group and refine biological data according to many criteria, including cross-species analyses, disease links, sequence variations, and expression patterns. Both tabulated list data and biological sequence output can be generated dynamically, in HTML, text, Microsoft Excel, and compressed formats. A wide range of sequence types, such as cDNA, peptides, coding regions, UTRs, and exons, with additional upstream and downstream regions, can be retrieved. The EnsMart database can be accessed via a public Web site, or through a Java application suite. Both implementations and the database are freely available for local installation, and can be extended or adapted to `non-Ensembl' data sets.
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Cites
Rosenfeld, P. J., Cowley, G. S., McGee, T. L., Sandberg, M. A., Berson, E. L., & Dryja, T. P. (1992) · Nature Genetics · doi:10.1038/ng0692-209 · Cited by 422
Cited by
John, B., Enright, A. J., Aravin, A., Tuschl, T., Sander, C., & Marks, D. S. (2004) · PLoS Biology · doi:10.1371/journal.pbio.0020363 · Cited by 3,796
g:Profiler—a web-based toolset for functional profiling of gene lists from large-scale experiments
Reimand, J., Kull, M., Peterson, H., Hansen, J., & Vilo, J. (2007) · Nucleic Acids Research · doi:10.1093/nar/gkm226 · Cited by 1,545
The BioMart community portal: an innovative alternative to large, centralized data repositories
Smedley, D., Haider, S., Durinck, S., Pandini, L., Provero, P., Allen, J., Arnaiz, O., Awedh, M. H., Baldock, R., Barbiera, G., et al. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv350 · Cited by 755
Self-citationThe Ensembl Automatic Gene Annotation System
Curwen, V., Eyras, E., Andrews, T. D., Clarke, L., Mongin, E., Searle, S. M. J., & Clamp, M. (2004) · Genome Research · doi:10.1101/gr.1858004 · Cited by 400
BioMart: driving a paradigm change in biological data management
Kasprzyk, A. (2011) · Database · doi:10.1093/database/bar049 · Cited by 316
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Metadata
- Authors
- Kasprzyk, A., Keefe, D., Smedley, D., London, D., Spooner, W., Melsopp, C., Hammond, M., Rocca-Serra, P., Cox, T., & Birney, E.
- Venue
- Genome Research
- Publisher
- Cold Spring Harbor Laboratory
- Published
- 2004-01
- Volume
- 14
- Issue
- 1
- Pages
- 160-169
- ISSN
- 1088-9051 (ISSN-L)
- OpenAlex
- W2146453000
- Cited by
- 418
- References
- 1
- Type
- posted content
- Language
- en
- Open access
- bronze
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- Kasprzyk, A., Keefe, D., Smedley, D., London, D., Spooner, W., Melsopp, C., Hammond, M., Rocca-Serra, P., Cox, T., & Birney, E. (2004). EnsMart: A Generic System for Fast and Flexible Access to Biological Data. Genome Research. https://doi.org/10.1101/gr.1645104
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