Synergistic and antagonistic drug combinations depend on network topology.
Drug combinations may exhibit synergistic or antagonistic effects. Rational design of synergistic drug combinations remains a challenge despite active experimental and computational efforts. Because drugs manifest their action via their targets, the effects of drug combinations should depend on the...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2014-01-01
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| Series: | PLoS ONE |
| Online Access: | http://europepmc.org/articles/PMC3979733?pdf=render |
| _version_ | 1818943641301811200 |
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| author | Ning Yin Wenzhe Ma Jianfeng Pei Qi Ouyang Chao Tang Luhua Lai |
| author_facet | Ning Yin Wenzhe Ma Jianfeng Pei Qi Ouyang Chao Tang Luhua Lai |
| author_sort | Ning Yin |
| collection | DOAJ |
| description | Drug combinations may exhibit synergistic or antagonistic effects. Rational design of synergistic drug combinations remains a challenge despite active experimental and computational efforts. Because drugs manifest their action via their targets, the effects of drug combinations should depend on the interaction of their targets in a network manner. We therefore modeled the effects of drug combinations along with their targets interacting in a network, trying to elucidate the relationships between the network topology involving drug targets and drug combination effects. We used three-node enzymatic networks with various topologies and parameters to study two-drug combinations. These networks can be simplifications of more complex networks involving drug targets, or closely connected target networks themselves. We found that the effects of most of the combinations were not sensitive to parameter variation, indicating that drug combinational effects largely depend on network topology. We then identified and analyzed consistent synergistic or antagonistic drug combination motifs. Synergistic motifs encompass a diverse range of patterns, including both serial and parallel combinations, while antagonistic combinations are relatively less common and homogenous, mostly composed of a positive feedback loop and a downstream link. Overall our study indicated that designing novel synergistic drug combinations based on network topology could be promising, and the motifs we identified could be a useful catalog for rational drug combination design in enzymatic systems. |
| first_indexed | 2024-12-20T07:30:33Z |
| format | Article |
| id | doaj.art-e53cfdec32dc479096331d62a1ea9363 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-20T07:30:33Z |
| publishDate | 2014-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-e53cfdec32dc479096331d62a1ea93632022-12-21T19:48:26ZengPublic Library of Science (PLoS)PLoS ONE1932-62032014-01-0194e9396010.1371/journal.pone.0093960Synergistic and antagonistic drug combinations depend on network topology.Ning YinWenzhe MaJianfeng PeiQi OuyangChao TangLuhua LaiDrug combinations may exhibit synergistic or antagonistic effects. Rational design of synergistic drug combinations remains a challenge despite active experimental and computational efforts. Because drugs manifest their action via their targets, the effects of drug combinations should depend on the interaction of their targets in a network manner. We therefore modeled the effects of drug combinations along with their targets interacting in a network, trying to elucidate the relationships between the network topology involving drug targets and drug combination effects. We used three-node enzymatic networks with various topologies and parameters to study two-drug combinations. These networks can be simplifications of more complex networks involving drug targets, or closely connected target networks themselves. We found that the effects of most of the combinations were not sensitive to parameter variation, indicating that drug combinational effects largely depend on network topology. We then identified and analyzed consistent synergistic or antagonistic drug combination motifs. Synergistic motifs encompass a diverse range of patterns, including both serial and parallel combinations, while antagonistic combinations are relatively less common and homogenous, mostly composed of a positive feedback loop and a downstream link. Overall our study indicated that designing novel synergistic drug combinations based on network topology could be promising, and the motifs we identified could be a useful catalog for rational drug combination design in enzymatic systems.http://europepmc.org/articles/PMC3979733?pdf=render |
| spellingShingle | Ning Yin Wenzhe Ma Jianfeng Pei Qi Ouyang Chao Tang Luhua Lai Synergistic and antagonistic drug combinations depend on network topology. PLoS ONE |
| title | Synergistic and antagonistic drug combinations depend on network topology. |
| title_full | Synergistic and antagonistic drug combinations depend on network topology. |
| title_fullStr | Synergistic and antagonistic drug combinations depend on network topology. |
| title_full_unstemmed | Synergistic and antagonistic drug combinations depend on network topology. |
| title_short | Synergistic and antagonistic drug combinations depend on network topology. |
| title_sort | synergistic and antagonistic drug combinations depend on network topology |
| url | http://europepmc.org/articles/PMC3979733?pdf=render |
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