Recent Hits Acquired by BLAST (ReHAB): A tool to identify new hits in sequence similarity searches
<p>Abstract</p> <p>Background</p> <p>Sequence similarity searching is a powerful tool to help develop hypotheses in the quest to assign functional, structural and evolutionary information to DNA and protein sequences. As sequence databases continue to grow exponentially...
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| Format: | Article |
| Language: | English |
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BMC
2005-02-01
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| Series: | BMC Bioinformatics |
| Online Access: | http://www.biomedcentral.com/1471-2105/6/23 |
| _version_ | 1819140060595879936 |
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| author | Upton Chris Esteban David J Whitney Joe |
| author_facet | Upton Chris Esteban David J Whitney Joe |
| author_sort | Upton Chris |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Sequence similarity searching is a powerful tool to help develop hypotheses in the quest to assign functional, structural and evolutionary information to DNA and protein sequences. As sequence databases continue to grow exponentially, it becomes increasingly important to repeat searches at frequent intervals, and similarity searches retrieve larger and larger sets of results. New and potentially significant results may be buried in a long list of previously obtained sequence hits from past searches.</p> <p>Results</p> <p>ReHAB (Recent Hits Acquired from BLAST) is a tool for finding new protein hits in repeated PSI-BLAST searches. ReHAB compares results from PSI-BLAST searches performed with two versions of a protein sequence database and highlights hits that are present only in the updated database. Results are presented in an easily comprehended table, or in a BLAST-like report, using colors to highlight the new hits. ReHAB is designed to handle large numbers of query sequences, such as whole genomes or sets of genomes. Advanced computer skills are not needed to use ReHAB; the graphics interface is simple to use and was designed with the bench biologist in mind.</p> <p>Conclusions</p> <p>This software greatly simplifies the problem of evaluating the output of large numbers of protein database searches.</p> |
| first_indexed | 2024-12-22T11:32:33Z |
| format | Article |
| id | doaj.art-963408e9168d4f27b88b384b24075b50 |
| institution | Directory Open Access Journal |
| issn | 1471-2105 |
| language | English |
| last_indexed | 2024-12-22T11:32:33Z |
| publishDate | 2005-02-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Bioinformatics |
| spelling | doaj.art-963408e9168d4f27b88b384b24075b502022-12-21T18:27:33ZengBMCBMC Bioinformatics1471-21052005-02-01612310.1186/1471-2105-6-23Recent Hits Acquired by BLAST (ReHAB): A tool to identify new hits in sequence similarity searchesUpton ChrisEsteban David JWhitney Joe<p>Abstract</p> <p>Background</p> <p>Sequence similarity searching is a powerful tool to help develop hypotheses in the quest to assign functional, structural and evolutionary information to DNA and protein sequences. As sequence databases continue to grow exponentially, it becomes increasingly important to repeat searches at frequent intervals, and similarity searches retrieve larger and larger sets of results. New and potentially significant results may be buried in a long list of previously obtained sequence hits from past searches.</p> <p>Results</p> <p>ReHAB (Recent Hits Acquired from BLAST) is a tool for finding new protein hits in repeated PSI-BLAST searches. ReHAB compares results from PSI-BLAST searches performed with two versions of a protein sequence database and highlights hits that are present only in the updated database. Results are presented in an easily comprehended table, or in a BLAST-like report, using colors to highlight the new hits. ReHAB is designed to handle large numbers of query sequences, such as whole genomes or sets of genomes. Advanced computer skills are not needed to use ReHAB; the graphics interface is simple to use and was designed with the bench biologist in mind.</p> <p>Conclusions</p> <p>This software greatly simplifies the problem of evaluating the output of large numbers of protein database searches.</p>http://www.biomedcentral.com/1471-2105/6/23 |
| spellingShingle | Upton Chris Esteban David J Whitney Joe Recent Hits Acquired by BLAST (ReHAB): A tool to identify new hits in sequence similarity searches BMC Bioinformatics |
| title | Recent Hits Acquired by BLAST (ReHAB): A tool to identify new hits in sequence similarity searches |
| title_full | Recent Hits Acquired by BLAST (ReHAB): A tool to identify new hits in sequence similarity searches |
| title_fullStr | Recent Hits Acquired by BLAST (ReHAB): A tool to identify new hits in sequence similarity searches |
| title_full_unstemmed | Recent Hits Acquired by BLAST (ReHAB): A tool to identify new hits in sequence similarity searches |
| title_short | Recent Hits Acquired by BLAST (ReHAB): A tool to identify new hits in sequence similarity searches |
| title_sort | recent hits acquired by blast rehab a tool to identify new hits in sequence similarity searches |
| url | http://www.biomedcentral.com/1471-2105/6/23 |
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