Prioritization of candidate cancer drugs based on a drug functional similarity network constructed by integrating pathway activities and drug activities
Due to the speed, efficiency, relative risk, and lower costs compared to traditional drug discovery, the prioritization of candidate drugs for repurposing against cancers of interest has attracted the attention of experts in recent years. Herein, we present a powerful computational approach, termed...
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| Main Authors: | , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Wiley
2019-10-01
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| Series: | Molecular Oncology |
| Subjects: | |
| Online Access: | https://doi.org/10.1002/1878-0261.12564 |
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| _version_ | 1849314927311847424 |
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| author | Jieyi Di Baotong Zheng Qingfei Kong Ying Jiang Siyao Liu Yang Yang Xudong Han Yuqi Sheng Yunpeng Zhang Liang Cheng Junwei Han |
| author_facet | Jieyi Di Baotong Zheng Qingfei Kong Ying Jiang Siyao Liu Yang Yang Xudong Han Yuqi Sheng Yunpeng Zhang Liang Cheng Junwei Han |
| author_sort | Jieyi Di |
| collection | DOAJ |
| description | Due to the speed, efficiency, relative risk, and lower costs compared to traditional drug discovery, the prioritization of candidate drugs for repurposing against cancers of interest has attracted the attention of experts in recent years. Herein, we present a powerful computational approach, termed prioritization of candidate drugs (PriorCD), for the prioritization of candidate cancer drugs based on a global network propagation algorithm and a drug–drug functional similarity network constructed by integrating pathway activity profiles and drug activity profiles. This provides a new approach to drug repurposing by first considering the drug functional similarities at the pathway level. The performance of PriorCD in drug repurposing was evaluated by using drug datasets of breast cancer and ovarian cancer. Cross‐validation tests on the drugs approved for the treatment of these cancers indicated that our approach can achieve area under receiver‐operating characteristic curve (AUROC) values greater than 0.82. Furthermore, literature searches validated our results, and comparison with other classical gene‐based repurposing methods indicated that our pathway‐level PriorCD is comparatively more effective at prioritizing candidate drugs with similar therapeutic effects. We hope that our study will be of benefit to the field of drug discovery. In order to expand the usage of PriorCD, a freely available R‐based package, PriorCD, has been developed to prioritize candidate anticancer drugs for drug repurposing. |
| format | Article |
| id | doaj-art-c2601ff009fb4603a631996b3c4eb700 |
| institution | Kabale University |
| issn | 1574-7891 1878-0261 |
| language | English |
| publishDate | 2019-10-01 |
| publisher | Wiley |
| record_format | Article |
| series | Molecular Oncology |
| spelling | doaj-art-c2601ff009fb4603a631996b3c4eb7002025-08-20T03:52:16ZengWileyMolecular Oncology1574-78911878-02612019-10-0113102259227710.1002/1878-0261.12564Prioritization of candidate cancer drugs based on a drug functional similarity network constructed by integrating pathway activities and drug activitiesJieyi Di0Baotong Zheng1Qingfei Kong2Ying Jiang3Siyao Liu4Yang Yang5Xudong Han6Yuqi Sheng7Yunpeng Zhang8Liang Cheng9Junwei Han10College of Bioinformatics Science and Technology Harbin Medical University ChinaCollege of Bioinformatics Science and Technology Harbin Medical University ChinaDepartment of Neurobiology Harbin Medical University ChinaCollege of Basic Medical Science Heilongjiang University of Chinese Medicine Harbin ChinaCollege of Bioinformatics Science and Technology Harbin Medical University ChinaCollege of Bioinformatics Science and Technology Harbin Medical University ChinaCollege of Bioinformatics Science and Technology Harbin Medical University ChinaCollege of Bioinformatics Science and Technology Harbin Medical University ChinaCollege of Bioinformatics Science and Technology Harbin Medical University ChinaCollege of Bioinformatics Science and Technology Harbin Medical University ChinaCollege of Bioinformatics Science and Technology Harbin Medical University ChinaDue to the speed, efficiency, relative risk, and lower costs compared to traditional drug discovery, the prioritization of candidate drugs for repurposing against cancers of interest has attracted the attention of experts in recent years. Herein, we present a powerful computational approach, termed prioritization of candidate drugs (PriorCD), for the prioritization of candidate cancer drugs based on a global network propagation algorithm and a drug–drug functional similarity network constructed by integrating pathway activity profiles and drug activity profiles. This provides a new approach to drug repurposing by first considering the drug functional similarities at the pathway level. The performance of PriorCD in drug repurposing was evaluated by using drug datasets of breast cancer and ovarian cancer. Cross‐validation tests on the drugs approved for the treatment of these cancers indicated that our approach can achieve area under receiver‐operating characteristic curve (AUROC) values greater than 0.82. Furthermore, literature searches validated our results, and comparison with other classical gene‐based repurposing methods indicated that our pathway‐level PriorCD is comparatively more effective at prioritizing candidate drugs with similar therapeutic effects. We hope that our study will be of benefit to the field of drug discovery. In order to expand the usage of PriorCD, a freely available R‐based package, PriorCD, has been developed to prioritize candidate anticancer drugs for drug repurposing.https://doi.org/10.1002/1878-0261.12564drug activitiesdrug functional similarity networkdrug repurposingpathway activities |
| spellingShingle | Jieyi Di Baotong Zheng Qingfei Kong Ying Jiang Siyao Liu Yang Yang Xudong Han Yuqi Sheng Yunpeng Zhang Liang Cheng Junwei Han Prioritization of candidate cancer drugs based on a drug functional similarity network constructed by integrating pathway activities and drug activities Molecular Oncology drug activities drug functional similarity network drug repurposing pathway activities |
| title | Prioritization of candidate cancer drugs based on a drug functional similarity network constructed by integrating pathway activities and drug activities |
| title_full | Prioritization of candidate cancer drugs based on a drug functional similarity network constructed by integrating pathway activities and drug activities |
| title_fullStr | Prioritization of candidate cancer drugs based on a drug functional similarity network constructed by integrating pathway activities and drug activities |
| title_full_unstemmed | Prioritization of candidate cancer drugs based on a drug functional similarity network constructed by integrating pathway activities and drug activities |
| title_short | Prioritization of candidate cancer drugs based on a drug functional similarity network constructed by integrating pathway activities and drug activities |
| title_sort | prioritization of candidate cancer drugs based on a drug functional similarity network constructed by integrating pathway activities and drug activities |
| topic | drug activities drug functional similarity network drug repurposing pathway activities |
| url | https://doi.org/10.1002/1878-0261.12564 |
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