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OTTM: an automated classification tool for translational drug discovery from omics data

文献类型：期刊论文

作者Yang, Xiaobo2; Zhang, Bei3,4; Wang, Siqi1,5; Lu, Ye6,7; Chen, Kaixian2,3,4,6; Luo, Cheng4,6,8; Sun, Aihua9,10; Zhang, Hao8
刊名BRIEFINGS IN BIOINFORMATICS
出版日期2023-08-18
页码12
ISSN号1467-5463
关键词OTTM omics data translational drug discovery literature mining hepatocellular carcinoma
DOI10.1093/bib/bbad301
通讯作者Luo, Cheng(cluo@simm.ac.cn) ; Sun, Aihua(sunah620@126.com) ; Zhang, Hao(hao_cadd@simm.ac.cn)
英文摘要Omics data from clinical samples are the predominant source of target discovery and drug development. Typically, hundreds or thousands of differentially expressed genes or proteins can be identified from omics data. This scale of possibilities is overwhelming for target discovery and validation using biochemical or cellular experiments. Most of these proteins and genes have no corresponding drugs or even active compounds. Moreover, a proportion of them may have been previously reported as being relevant to the disease of interest. To facilitate translational drug discovery from omics data, we have developed a new classification tool named Omics and Text driven Translational Medicine (OTTM). This tool can markedly narrow the range of proteins or genes that merit further validation via drug availability assessment and literature mining. For the 4489 candidate proteins identified in our previous proteomics study, OTTM recommended 40 FDA-approved or clinical trial drugs. Of these, 15 are available commercially and were tested on hepatocellular carcinoma Hep-G2 cells. Two drugs-tafenoquine succinate (an FDA-approved antimalarial drug targeting CYC1) and branaplam (a Phase 3 clinical drug targeting SMN1 for the treatment of spinal muscular atrophy)-showed potent inhibitory activity against Hep-G2 cell viability, suggesting that CYC1 and SMN1 may be potential therapeutic target proteins for hepatocellular carcinoma. In summary, OTTM is an efficient classification tool that can accelerate the discovery of effective drugs and targets using thousands of candidate proteins identified from omics data. The online and local versions of OTTM are available at .
WOS关键词TAFENOQUINE
资助项目National Key Ramp;D Program of China[2020YFE0202200] ; National Key Ramp;D Program of China[2022YFC3400500] ; National Key Ramp;D Program of China[2021ZD0203900] ; National Natural Science Foundation of China[81903538] ; National Natural Science Foundation of China[81821005] ; National Natural Science Foundation of China[92253303] ; Chinese Academy of Medical Sciences Innovation Fund for Medical Sciences[2019-I2M-5-063] ; Innovation Team and Talents Cultivation Program of National Administration of Traditional Chinese Medicine[ZYYCXTD-D-202004] ; Lingang Laboratory[LG-QS-202204-07] ; High-level New Ramp;D Institute[2019B090904008] ; High-level Innovative Research Institute from the Department of Science and Technology of Guangdong Province[2021B0909050003]
WOS研究方向Biochemistry & Molecular Biology ; Mathematical & Computational Biology
语种英语
出版者OXFORD UNIV PRESS
WOS记录号WOS:001050594900001
源URL[http://119.78.100.183/handle/2S10ELR8/306947]  
专题新药研究国家重点实验室
通讯作者Luo, Cheng; Sun, Aihua; Zhang, Hao
作者单位1.Beijing Proteome Res Ctr, State Key Lab Prote, Beijing, Peoples R China
2.ShanghaiTech Univ, Sch Life Sci & Technol, 393 Huaxiazhong Rd, Shanghai 200031, Peoples R China
3.Chinese Acad Sci, Shanghai Inst Mat Med, Drug Discovery & Design Ctr, 555 Zuchongzhi Rd, Shanghai 201203, Peoples R China
4.Univ Chinese Acad Sci, 19A Yuquan Rd, Beijing 100049, Peoples R China
5.Natl Ctr Prot Sci Beijing, Beijing, Peoples R China
6.Nanjing Univ Chinese Med, Sch Chinese Mat Med, Nanjing 210023, Peoples R China
7.Chinese Acad Sci, Shanghai Inst Materia Med, Chem Biol Res Ctr, Shanghai 201203, Peoples R China
8.Chinese Acad Sci, Shanghai Inst Mat Med, Chem Biol Res Ctr, State Key Lab Drug Res, 555 Zuchongzhi Rd, Shanghai 201203, Peoples R China
9.Beijing Inst Life, Beijing Proteome Res Ctr, Natl Ctr Prot Sci Beijing, State Key Lab Prote, Beijing, Peoples R China
10.Chinese Acad Med Sci, Res Unit Prote Driven Canc Precis Med, Shanghai, Peoples R China
推荐引用方式
GB/T 7714		 Yang, Xiaobo,Zhang, Bei,Wang, Siqi,et al. OTTM: an automated classification tool for translational drug discovery from omics data[J]. BRIEFINGS IN BIOINFORMATICS,2023:12.
APA Yang, Xiaobo.,Zhang, Bei.,Wang, Siqi.,Lu, Ye.,Chen, Kaixian.,...&Zhang, Hao.(2023).OTTM: an automated classification tool for translational drug discovery from omics data.BRIEFINGS IN BIOINFORMATICS,12.
MLA Yang, Xiaobo,et al."OTTM: an automated classification tool for translational drug discovery from omics data".BRIEFINGS IN BIOINFORMATICS (2023):12.

入库方式： OAI收割

来源：上海药物研究所

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