EST2Prot: Mapping EST sequences to proteins
<p>Abstract</p> <p>Background</p> <p>EST libraries are used in various biological studies, from microarray experiments to proteomic and genetic screens. These libraries usually contain many uncharacterized ESTs that are typically ignored since they cannot be mapped to k...
| Main Authors: | , , |
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| Format: | Article |
| Language: | English |
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BMC
2006-03-01
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| Series: | BMC Genomics |
| Online Access: | http://www.biomedcentral.com/1471-2164/7/41 |
| _version_ | 1818492957192355840 |
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| author | Lin David M Shafer Paul Yona Golan |
| author_facet | Lin David M Shafer Paul Yona Golan |
| author_sort | Lin David M |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>EST libraries are used in various biological studies, from microarray experiments to proteomic and genetic screens. These libraries usually contain many uncharacterized ESTs that are typically ignored since they cannot be mapped to known genes. Consequently, new discoveries are possibly overlooked.</p> <p>Results</p> <p>We describe a system (EST2Prot) that uses multiple elements to map EST sequences to their corresponding protein products. EST2Prot uses UniGene clusters, substring analysis, information about protein coding regions in existing DNA sequences and protein database searches to detect protein products related to a query EST sequence. Gene Ontology terms, Swiss-Prot keywords, and protein similarity data are used to map the ESTs to functional descriptors.</p> <p>Conclusion</p> <p>EST2Prot extends and significantly enriches the popular UniGene mapping by utilizing multiple relations between known biological entities. It produces a mapping between ESTs and proteins in real-time through a simple web-interface. The system is part of the Biozon database and is accessible at <url>http://biozon.org/tools/est/</url>.</p> |
| first_indexed | 2024-12-10T17:49:03Z |
| format | Article |
| id | doaj.art-06384c8ab7fe4340aaf2cec21dba09da |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-10T17:49:03Z |
| publishDate | 2006-03-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-06384c8ab7fe4340aaf2cec21dba09da2022-12-22T01:39:07ZengBMCBMC Genomics1471-21642006-03-01714110.1186/1471-2164-7-41EST2Prot: Mapping EST sequences to proteinsLin David MShafer PaulYona Golan<p>Abstract</p> <p>Background</p> <p>EST libraries are used in various biological studies, from microarray experiments to proteomic and genetic screens. These libraries usually contain many uncharacterized ESTs that are typically ignored since they cannot be mapped to known genes. Consequently, new discoveries are possibly overlooked.</p> <p>Results</p> <p>We describe a system (EST2Prot) that uses multiple elements to map EST sequences to their corresponding protein products. EST2Prot uses UniGene clusters, substring analysis, information about protein coding regions in existing DNA sequences and protein database searches to detect protein products related to a query EST sequence. Gene Ontology terms, Swiss-Prot keywords, and protein similarity data are used to map the ESTs to functional descriptors.</p> <p>Conclusion</p> <p>EST2Prot extends and significantly enriches the popular UniGene mapping by utilizing multiple relations between known biological entities. It produces a mapping between ESTs and proteins in real-time through a simple web-interface. The system is part of the Biozon database and is accessible at <url>http://biozon.org/tools/est/</url>.</p>http://www.biomedcentral.com/1471-2164/7/41 |
| spellingShingle | Lin David M Shafer Paul Yona Golan EST2Prot: Mapping EST sequences to proteins BMC Genomics |
| title | EST2Prot: Mapping EST sequences to proteins |
| title_full | EST2Prot: Mapping EST sequences to proteins |
| title_fullStr | EST2Prot: Mapping EST sequences to proteins |
| title_full_unstemmed | EST2Prot: Mapping EST sequences to proteins |
| title_short | EST2Prot: Mapping EST sequences to proteins |
| title_sort | est2prot mapping est sequences to proteins |
| url | http://www.biomedcentral.com/1471-2164/7/41 |
| work_keys_str_mv | AT lindavidm est2protmappingestsequencestoproteins AT shaferpaul est2protmappingestsequencestoproteins AT yonagolan est2protmappingestsequencestoproteins |