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      An online database for genome information of agricultural plants

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          Abstract

          The integration-based genome database provides useful information through a user-friendly web interface that allows analysis of comparative genome for agricultural plants. We have concentrated on the functional bioinformatics of major agricultural resources, such as rice, Chinese cabbage, rice mutant lines, and microorganisms. The major functions are focused on functional genome analysis, including genome projects, gene expression analysis, gene markers with genetic map, analysis tools for comparative genome structure, and genome annotation in agricultural plants.

          Availability

          The database is available for free at http://nabic.naas.go.kr/

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          A database for allergenic proteins and tools for allergenicity prediction

          ChangKug Kim, SooJin Kwon, GangSeob Lee … (2009)
          The AllergenPro database has developed a web-based system that will provide information about allergen in microbes, animals and plants. The database has three major parts and functions:(i) database list; (ii) allergen search; and (iii) allergenicity prediction. The database contains 2,434 allergens related information readily available in the database such as on allergens in rice microbes (712 records), animals (617 records) and plants (1,105 records). Furthermore, this database provides bioinformatics tools for allergenicity prediction. Users can search for specific allergens by various methods and can run tools for allergenicity prediction using three different methods. Availability The database is available for free at http://www.niab.go.kr/nabic/
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            PlantGM: a database for genetic markers in rice (Oryza sativa) and Chinese cabbage (Brassica rapa)

            Chang-Kug Kim, Jung-Sun Kim, Gang-Seob Lee … (2008)
            The Plant Genetic Map Database (PlantGM) has been developed as a web-based system which provides information about genetic markers in rice (Oryza sativa) and Chinese cabbage (Brassica rapa). The database has three major parts and functions; (1) Map Search, (2) Marker Search, and (3) QTL Search. At present, the database provides characterization information for about 3258 genetic markers. It has 2800 RFLP and 112 QTL markers related to rice in addition to 321 RFLP and 25 PCR-based markers for Chinese cabbage. In addition, a genetic linkage map was also constructed by using 1,054 markers from 2,912 markers in rice. Availability The database is available for free at http://www.niab.go.kr/nabic/PlantGM
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              The integrated web service and genome database for agricultural plants with biotechnology information

              ChangKug Kim, DongSuk Park, YoungJoo Seol … (2011)
              The National Agricultural Biotechnology Information Center (NABIC) constructed an agricultural biology-based infrastructure and developed a Web based relational database for agricultural plants with biotechnology information. The NABIC has concentrated on functional genomics of major agricultural plants, building an integrated biotechnology database for agro-biotech information that focuses on genomics of major agricultural resources. This genome database provides annotated genome information from 1,039,823 records mapped to rice, Arabidopsis, and Chinese cabbage.
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                Author and article information

                Journal
                Journal ID (nlm-ta): Bioinformation
                Journal ID (iso-abbrev): Bioinformation
                Journal ID (publisher-id): Bioinformation
                Title: Bioinformation
                Publisher: Biomedical Informatics
                ISSN (Print): 0973-8894
                ISSN (Electronic): 0973-2063
                Publication date Collection: 2012
                Publication date (Electronic): 31 October 2012
                Volume: 8
                Issue: 21
                Pages: 1059-1061
                Affiliations
                Genomics Division, National Academy of Agricultural Science (NAAS), Suwon 441-707, Korea
                Author notes
                [* ]JangHo Hahn: jhhahn@ 123456rda.go.kr
                Article
                Publisher ID: 97320630081059
                DOI: 10.6026/97320630081059
                PMC ID: 3524888
                PubMed ID: 23275706
                SO-VID: 81a3d008-0822-4692-adf2-a2d3810702d9
                Copyright © © 2012 Biomedical Informatics
                License:

                This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.

                History
                Date received : 03 October 2012
                Date accepted : 15 October 2012
                Categories
                Subject: Database

                ScienceOpen disciplines: Bioinformatics & Computational biology
                Keywords: agricultural plants,genome database,genome information
                Data availability:
                ScienceOpen disciplines: Bioinformatics & Computational biology
                Keywords: agricultural plants, genome database, genome information

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