Name
Abstract | ||
|---|---|---|
Motivation: CellDesigner is a well-established biological map editor used in many large-scale scientific efforts. However, the interoperability between the Systems Biology Graphical Notation (SBGN) Markup Language (SBGN-ML) and the CellDesigner's proprietary Systems Biology Markup Language (SBML) extension formats remains a challenge due to the proprietary extensions used in CellDesigner files. Results: We introduce a library named cd2sbgnml and an associated web service for bidirectional conversion between CellDesigner's proprietary SBML extension and SBGN-ML formats. We discuss the functionality of the cd2sbgnml converter, which was successfully used for the translation of comprehensive large-scale diagrams such as the RECON Human Metabolic network and the complete Atlas of Cancer Signalling Network, from the CellDesigner file format into SBGN-ML. |
Year | DOI | Venue |
|---|---|---|
2020 | 10.1093/bioinformatics/btz969 | BIOINFORMATICS |
DocType | Volume | Issue |
Journal | 36 | 8 |
ISSN | Citations | PageRank |
1367-4803 | 0 | 0.34 |
References | Authors | |
0 | 7 | |
Name | Order | Citations | PageRank |
|---|---|---|---|
| Irina Balaur | 1 | 5 | 1.84 |
| Ludovic Roy | 2 | 0 | 0.34 |
| Alexander Mazein | 3 | 18 | 5.32 |
| S Gökberk Karaca | 4 | 0 | 0.34 |
| U. Dogrusoz | 5 | 68 | 7.83 |
| Emmanuel Barillot | 6 | 950 | 165.00 |
| Andrei Zinovyev | 7 | 282 | 27.30 |