Title |
NetworkViewer: visualizing biochemical reaction networks with embedded rendering of molecular interaction rules
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Published in |
BMC Systems Biology, June 2014
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DOI | 10.1186/1752-0509-8-70 |
Pubmed ID | |
Authors |
Hsueh-Chien Cheng, Bastian R Angermann, Fengkai Zhang, Martin Meier-Schellersheim |
Abstract |
Network representations of cell-biological signaling processes frequently contain large numbers of interacting molecular and multi-molecular components that can exist in, and switch between, multiple biochemical and/or structural states. In addition, the interaction categories (associations, dissociations and transformations) in such networks cannot satisfactorily be mapped onto simple arrows connecting pairs of components since their specifications involve information such as reaction rates and conditions with regard to the states of the interacting components. This leads to the challenge of having to reconcile competing objectives: providing a high-level overview without omitting relevant information, and showing interaction specifics while not overwhelming users with too much detail displayed simultaneously. This problem is typically addressed by splitting the information required to understand a reaction network model into several categories that are rendered separately through combinations of visualizations and/or textual and tabular elements, requiring modelers to consult several sources to obtain comprehensive insights into the underlying assumptions of the model. |
X Demographics
Geographical breakdown
Country | Count | As % |
---|---|---|
Japan | 1 | 25% |
Nigeria | 1 | 25% |
Canada | 1 | 25% |
Unknown | 1 | 25% |
Demographic breakdown
Type | Count | As % |
---|---|---|
Members of the public | 2 | 50% |
Practitioners (doctors, other healthcare professionals) | 2 | 50% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
United States | 2 | 10% |
United Kingdom | 1 | 5% |
Switzerland | 1 | 5% |
Brazil | 1 | 5% |
Unknown | 15 | 75% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Student > Ph. D. Student | 9 | 45% |
Researcher | 8 | 40% |
Student > Bachelor | 1 | 5% |
Professor > Associate Professor | 1 | 5% |
Student > Postgraduate | 1 | 5% |
Other | 0 | 0% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 8 | 40% |
Computer Science | 3 | 15% |
Biochemistry, Genetics and Molecular Biology | 2 | 10% |
Chemistry | 2 | 10% |
Environmental Science | 1 | 5% |
Other | 4 | 20% |