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LOTUS-DB: an integrative and interactive database for Nelumbo nucifera study.

Wang K, Deng J, Damaris RN, Yang M, Xu L, Yang P - Database (Oxford) (2015)

Bottom Line: In 2013, two publications reported the sequencing of its full genome, based on which we constructed a database named as LOTUS-DB.It will provide comprehensive information on the annotation, gene function and expression for the sacred lotus.The information will facilitate users to efficiently query and browse genes, graphically visualize genome and download a variety of complex data information on genome DNA, coding sequence (CDS), transcripts or peptide sequences, promoters and markers.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Plant Germplasm Enhancement and Speciality Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, China and University of Chinese Academy of Sciences, Beijing, China.

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The interface of LOTUS-DB. (a) The navigation toolbar contains the main icons for the function of the website. (b) The sequences retrieval and genes search area. (c) Frequently used tools. (d) News, publications and gallery photos show.
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bav023-F2: The interface of LOTUS-DB. (a) The navigation toolbar contains the main icons for the function of the website. (b) The sequences retrieval and genes search area. (c) Frequently used tools. (d) News, publications and gallery photos show.

Mentions: To provide abundant information about sacred lotus to the plant biologists community, the LOTUS-DB database was constructed. A clear framework was designed to provide the users an efficient and friendly interface to operate the genome data of sacred lotus, which is shown as a simple and direct homepage (Figure 2). The users could easily search for sequence information, perform comparison and download data selectively or entirely. The website is mainly divided into five sections: Search, Tools, Gbrowse, Download and Gallery. All of the sections are part of the navigation toolbar at the top of the homepage (Figure 2a). Some tools or search functions that would be more frequently used are placed in the homepage. The left side of the homepage allows users to search the genes by inputting putative functions and to get the entire annotation information of a single gene by inputting gene IDs (Figure 2b). Some frequently used tools are BLAST and BLAT; sacred lotus cultivar photos (Gallery) and how to use our website (Help) are placed at the central part of the homepage. The right side of the homepage displays news and publications related to sacred lotus and an animated photo of Gallery (Figure 2d).Figure 2.


LOTUS-DB: an integrative and interactive database for Nelumbo nucifera study.

Wang K, Deng J, Damaris RN, Yang M, Xu L, Yang P - Database (Oxford) (2015)

The interface of LOTUS-DB. (a) The navigation toolbar contains the main icons for the function of the website. (b) The sequences retrieval and genes search area. (c) Frequently used tools. (d) News, publications and gallery photos show.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4383347&req=5

bav023-F2: The interface of LOTUS-DB. (a) The navigation toolbar contains the main icons for the function of the website. (b) The sequences retrieval and genes search area. (c) Frequently used tools. (d) News, publications and gallery photos show.
Mentions: To provide abundant information about sacred lotus to the plant biologists community, the LOTUS-DB database was constructed. A clear framework was designed to provide the users an efficient and friendly interface to operate the genome data of sacred lotus, which is shown as a simple and direct homepage (Figure 2). The users could easily search for sequence information, perform comparison and download data selectively or entirely. The website is mainly divided into five sections: Search, Tools, Gbrowse, Download and Gallery. All of the sections are part of the navigation toolbar at the top of the homepage (Figure 2a). Some tools or search functions that would be more frequently used are placed in the homepage. The left side of the homepage allows users to search the genes by inputting putative functions and to get the entire annotation information of a single gene by inputting gene IDs (Figure 2b). Some frequently used tools are BLAST and BLAT; sacred lotus cultivar photos (Gallery) and how to use our website (Help) are placed at the central part of the homepage. The right side of the homepage displays news and publications related to sacred lotus and an animated photo of Gallery (Figure 2d).Figure 2.

Bottom Line: In 2013, two publications reported the sequencing of its full genome, based on which we constructed a database named as LOTUS-DB.It will provide comprehensive information on the annotation, gene function and expression for the sacred lotus.The information will facilitate users to efficiently query and browse genes, graphically visualize genome and download a variety of complex data information on genome DNA, coding sequence (CDS), transcripts or peptide sequences, promoters and markers.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Plant Germplasm Enhancement and Speciality Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, China and University of Chinese Academy of Sciences, Beijing, China.

Show MeSH