DenovoProfiling: a webserver for de novo generated molecule library profiling

作者: Jiansong Fang , Zhihong Liu , Bingdong Liu , Zongbin Cui , Liwei Xie

DOI: 10.21203/RS.3.RS-142605/V2

关键词:

摘要: With the advances of deep learning techniques, various architectures for molecular generation have been proposed de novo drug design. Successful cases from academia and industrial demonstrated that based design could efficiently accelerate discovery process. The flourish methods applications created great demand visualization functional profiling generated molecules. rising publicly available chemogenomic databases lays good foundations create opportunities comprehensive library. In this paper, we present DenovoProfiling, a web server dedicated library profiling. Currently, DenovoProfiling contains six modules: (1) identification & visualization, (2) chemical space, (3) scaffold analysis, (4) alignment, (5) target pathways, (6) drugs mapping. provide structural identification, space exploration, mapping, targets pathways. annotated information give user clear picture their guidance in further selection candidates synthesis biological confirmation. is freely at http://denovoprofiling.xielab.net.

参考文章(47)
Asher Mullard, New drugs cost US$2.6 billion to develop Nature Reviews Drug Discovery. ,vol. 13, pp. 877- 877 ,(2014) , 10.1038/NRD4507
Dmitry I Osolodkin, Eugene V Radchenko, Alexey A Orlov, Andrey E Voronkov, Vladimir A Palyulin, Nikolay S Zefirov, Progress in visual representations of chemical space Expert Opinion on Drug Discovery. ,vol. 10, pp. 959- 973 ,(2015) , 10.1517/17460441.2015.1060216
Thomas Sander, Joel Freyss, Modest von Korff, Christian Rufener, DataWarrior: An Open-Source Program For Chemistry Aware Data Visualization And Analysis Journal of Chemical Information and Modeling. ,vol. 55, pp. 460- 473 ,(2015) , 10.1021/CI500588J
Minghao Zheng, Zhihong Liu, Xin Yan, Qianzhi Ding, Qiong Gu, Jun Xu, LBVS: an online platform for ligand-based virtual screening using publicly accessible databases Molecular Diversity. ,vol. 18, pp. 829- 840 ,(2014) , 10.1007/S11030-014-9545-3
R Vasundhara Devi, S Siva Sathya, Mohane Selvaraj Coumar, None, Evolutionary algorithms for de novo drug design - A survey soft computing. ,vol. 27, pp. 543- 552 ,(2015) , 10.1016/J.ASOC.2014.09.042
Yifeng Liu, Adam Maciejewski, David Arndt, Michael Wilson, Vanessa Neveu, Alexandra Tang, Geraldine Gabriel, Carol Ly, Sakina Adamjee, Zerihun T. Dame, Beomsoo Han, You Zhou, David S. Wishart, Vivian Law, Craig Knox, Yannick Djoumbou, Tim Jewison, An Chi Guo, DrugBank 4.0: shedding new light on drug metabolism Nucleic Acids Research. ,vol. 42, pp. 1091- 1097 ,(2014) , 10.1093/NAR/GKT1068
George Nicola, Tiqing Liu, Michael K. Gilson, Public domain databases for medicinal chemistry. Journal of Medicinal Chemistry. ,vol. 55, pp. 6987- 7002 ,(2012) , 10.1021/JM300501T
Lorenz M Mayr, Dejan Bojanic, Novel Trends in High-Throughput Screening Current Opinion in Pharmacology. ,vol. 9, pp. 580- 588 ,(2009) , 10.1016/J.COPH.2009.08.004
Xin Yan, Jiabo Li, Zhihong Liu, Minghao Zheng, Hu Ge, Jun Xu, Enhancing molecular shape comparison by weighted Gaussian functions. Journal of Chemical Information and Modeling. ,vol. 53, pp. 1967- 1978 ,(2013) , 10.1021/CI300601Q