International Journal of Numerical Analysis and Modeling最新文献

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A FINITE ELEMENT METHOD FOR ELASTICITY INTERFACE PROBLEMS WITH LOCALLY MODIFIED TRIANGULATIONS. 具有局部修正三角剖分的弹性界面问题的有限元方法。
IF 1.1 4区 数学
Hui Xie, Zhilin Li, Zhonghua Qiao
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引用次数: 0
THE MELTING MECHANISM OF DNA TETHERED TO A SURFACE. DNA附着在表面的融化机制。
IF 1.1 4区 数学
Khawla Qamhieh, Ka-Yiu Wong, Gillian C Lynch, B Montgomery Pettitt
{"title":"THE MELTING MECHANISM OF DNA TETHERED TO A SURFACE.","authors":"Khawla Qamhieh,&nbsp;Ka-Yiu Wong,&nbsp;Gillian C Lynch,&nbsp;B Montgomery Pettitt","doi":"","DOIUrl":"","url":null,"abstract":"<p><p>The details of melting of DNA immobilized on a chip or nanoparticle determines the sensitivity and operating characteristics of many analytical and synthetic biotechnological devices. Yet, little is known about the differences in how the DNA melting occurs between a homogeneous solution and that on a chip. We used molecular dynamics simulations to explore possible pathways for DNA melting on a chip. Simulation conditions were chosen to ensure that melting occurred in a submicrosecond timescale. The temperature was set to 400 K and the NaCl concentration was set to 0.1 M. We found less symmetry than in the solution case where for oligomeric double-stranded nucleic acids both ends melted with roughly equal probability. On a prepared silica surface we found melting is dominated by fraying from the end away from the surface. Strand separation was hindered by nonspecific surface adsorption at this temperature. At elevated temperatures the melted DNA was attracted to even uncharged organically coated surfaces demonstrating surface fouling. While hybridization is not the simple reverse of melting, this simulation has implications for the kinetics of hybridization.</p>","PeriodicalId":50301,"journal":{"name":"International Journal of Numerical Analysis and Modeling","volume":null,"pages":null},"PeriodicalIF":1.1,"publicationDate":"2009-03-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2755589/pdf/nihms106763.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40055846","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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