Chamberlin Steven R, Blucher Aurora, Wu Guanming, Shinto Lynne, Choonoo Gabrielle, Kulesz-Martin Molly, McWeeney Shannon
Division of Bioinformatics and Computational Biology, Department of Medical Informatics and Clinical Epidemiology, Portland, OR, United States.
OHSU Knight Cancer Institute, Portland, OR, United States.
Front Pharmacol. 2019 May 31;10:557. doi: 10.3389/fphar.2019.00557. eCollection 2019.
A body of research demonstrates examples of and synergy between natural products and anti-neoplastic drugs for some cancers. However, the underlying biological mechanisms are still elusive. To better understand biological entities targeted by natural products and therefore provide rational evidence for future novel combination therapies for cancer treatment, we assess the targetable space of natural products using public domain compound-target information. When considering pathways from the Reactome database targeted by natural products, we found an increase in coverage of 61% (725 pathways), relative to pathways covered by FDA approved cancer drugs collected in the Cancer Targetome, a resource for evidence-based drug-target interactions. Not only is the coverage of pathways targeted by compounds increased when we include natural products, but coverage of targets within those pathways is also increased. Furthermore, we examined the distribution of cancer driver genes across pathways to assess relevance of natural products to critical cancer therapeutic space. We found 24 pathways enriched for cancer drivers that had no available cancer drug interactions at a potentially clinically relevant binding affinity threshold of < 100nM that had at least one natural product interaction at that same binding threshold. Assessment of network context highlighted the fact that natural products show target family groupings both distinct from and in common with cancer drugs, strengthening the complementary potential for natural products in the cancer therapeutic space. In conclusion, our study provides a foundation for developing novel cancer treatment with the combination of drugs and natural products.
一系列研究表明,对于某些癌症,天然产物与抗肿瘤药物之间存在协同作用的实例。然而,其潜在的生物学机制仍不清楚。为了更好地了解天然产物所靶向的生物实体,从而为未来新型癌症联合治疗提供合理依据,我们利用公共领域的化合物-靶点信息评估天然产物的可靶向空间。在考虑天然产物靶向的Reactome数据库中的通路时,我们发现,相对于《癌症靶点组》(一个基于证据的药物-靶点相互作用资源库)中收集的FDA批准的癌症药物所覆盖的通路,天然产物所覆盖的通路增加了61%(725条通路)。当我们纳入天然产物时,不仅化合物靶向的通路覆盖范围增加了,而且这些通路内靶点的覆盖范围也增加了。此外,我们研究了癌症驱动基因在各通路中的分布,以评估天然产物与关键癌症治疗空间的相关性。我们发现,在潜在临床相关结合亲和力阈值<100nM时,有24条富含癌症驱动基因的通路没有可用的癌症药物相互作用,但在相同结合阈值下至少有一个天然产物相互作用。对网络背景的评估突出了这样一个事实,即天然产物显示出与癌症药物不同但又有共同之处的靶点家族分组,增强了天然产物在癌症治疗空间中的互补潜力。总之,我们的研究为开发药物与天然产物联合的新型癌症治疗方法奠定了基础。