RiceGAAS: an automated annotation system and database for rice genome sequence
| Autor: | Takuji Sasaki, Wakako Watanabe, Ikuo Horiuchi, Takashi Matsumoto, Hisataka Numa, Yuji Shimizu, Atsuko Idonuma, Katsumi Sakata, Hideki Nagasaki, Baltazar A. Antonio, Yoshiaki Nagamura, Kenichi Higo |
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| Rok vydání: | 2002 |
| Předmět: |
DNA
Plant Sequence analysis Gene prediction Information Storage and Retrieval Sequence Homology Vertebrate and Genome Annotation Project Biology Genes Plant computer.software_genre Genome Article DNA sequencing Automation Annotation Databases Genetic Computer Graphics Genetics Plant Proteins Whole genome sequencing Internet Database Oryza Sequence Analysis DNA GenBank Database Management Systems Databases Nucleic Acid computer Genome Plant Forecasting |
| Zdroj: | Nucleic Acids Research. 30:98-102 |
| ISSN: | 1362-4962 |
| DOI: | 10.1093/nar/30.1.98 |
| Popis: | An extensive effort of the International Rice Genome Sequencing Project (IRGSP) has resulted in rapid accumulation of genome sequence, and >137 Mb has already been made available to the public domain as of August 2001. This requires a high-throughput annotation scheme to extract biologically useful and timely information from the sequence data on a regular basis. A new automated annotation system and database called Rice Genome Automated Annotation System (RiceGAAS) has been developed to execute a reliable and up-to-date analysis of the genome sequence as well as to store and retrieve the results of annotation. The system has the following functional features: (i) collection of rice genome sequences from GenBank; (ii) execution of gene prediction and homology search programs; (iii) integration of results from various analyses and automatic interpretation of coding regions; (iv) re-execution of analysis, integration and automatic interpretation with the latest entries in reference databases; (v) integrated visualization of the stored data using web-based graphical view. RiceGAAS also has a data submission mechanism that allows public users to perform fully automated annotation of their own sequences. The system can be accessed at http://RiceGAAS.dna.affrc.go.jp/. |
| Databáze: | OpenAIRE |
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