Computational selection of RNA aptamer against angiopoietin-2 and experimental evaluation

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题名:	Computational selection of RNA aptamer against angiopoietin-2 and experimental evaluation
作者:	胡文品;Hu, Wen-Pin;張維克;Kumar, Jangam Vikram;黃俊仁;Chun-Jen Huangc,;陳文逸;Chen, Wen-Yih
贡献者:	生物與醫學資訊學系
关键词:	BioMed Research International
日期:	2015-03
上传时间:	2015-03-25 07:12:05 (UTC+0)
摘要:	Angiogenesis plays a decisive role in the growth and spread of cancer and angiopoietin-2 (Ang2) is in the spotlight of studies for its unique role in modulating angiogenesis. The aim of this study was to introduce a computational simulation approach to screen aptamers with high binding ability for Ang2. We carried out computational simulations of aptamer-protein interactions by using ZDOCK and ZRANK functions in Discovery Studio 3.5 starting from the available information of aptamers generated through the systematic evolution of ligands by exponential enrichment (SELEX) in the literature. From the best of three aptamers on the basis of ZRANK scores, 189 sequences with two-point mutations were created and simulated with Ang2. Then, we used a surface plasmon resonance (SPR) biosensor to test 3 mutant sequences of high ZRANK scores along with a high and a low affinity binding sequence as reported in the literature. We found a selected RNA aptamer has a higher binding affinity and SPR response than a reported sequence with the highest affinity. This is the first study of in silico selection of aptamers against Ang2 by using the ZRANK scoring function, which should help to increase the efficiency of selecting aptamers with high target-binding ability.
關聯:	胡文品
显示于类别:	[生物資訊與醫學工程學系 ] 期刊論文

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