Title |
Conversion of KEGG metabolic pathways to SBGN maps including automatic layout
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Published in |
BMC Bioinformatics, August 2013
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DOI | 10.1186/1471-2105-14-250 |
Pubmed ID | |
Authors |
Tobias Czauderna, Michael Wybrow, Kim Marriott, Falk Schreiber |
Abstract |
Biologists make frequent use of databases containing large and complex biological networks. One popular database is the Kyoto Encyclopedia of Genes and Genomes (KEGG) which uses its own graphical representation and manual layout for pathways. While some general drawing conventions exist for biological networks, arbitrary graphical representations are very common. Recently, a new standard has been established for displaying biological processes, the Systems Biology Graphical Notation (SBGN), which aims to unify the look of such maps. Ideally, online repositories such as KEGG would automatically provide networks in a variety of notations including SBGN. Unfortunately, this is non-trivial, since converting between notations may add, remove or otherwise alter map elements so that the existing layout cannot be simply reused. |
X Demographics
Geographical breakdown
Country | Count | As % |
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United States | 2 | 33% |
Germany | 1 | 17% |
Japan | 1 | 17% |
United Kingdom | 1 | 17% |
Unknown | 1 | 17% |
Demographic breakdown
Type | Count | As % |
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Scientists | 3 | 50% |
Members of the public | 3 | 50% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
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Netherlands | 1 | 2% |
Brazil | 1 | 2% |
Singapore | 1 | 2% |
Spain | 1 | 2% |
United States | 1 | 2% |
Luxembourg | 1 | 2% |
Unknown | 47 | 89% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Researcher | 19 | 36% |
Student > Ph. D. Student | 8 | 15% |
Student > Bachelor | 4 | 8% |
Other | 3 | 6% |
Professor > Associate Professor | 3 | 6% |
Other | 8 | 15% |
Unknown | 8 | 15% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 18 | 34% |
Computer Science | 12 | 23% |
Biochemistry, Genetics and Molecular Biology | 7 | 13% |
Arts and Humanities | 3 | 6% |
Environmental Science | 2 | 4% |
Other | 4 | 8% |
Unknown | 7 | 13% |