کد مقاله | کد نشریه | سال انتشار | مقاله انگلیسی | نسخه تمام متن |
---|---|---|---|---|
4952180 | 1442018 | 2017 | 10 صفحه PDF | دانلود رایگان |
عنوان انگلیسی مقاله ISI
Design tools for reporter strands and DNA origami scaffold strands
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کلمات کلیدی
موضوعات مرتبط
مهندسی و علوم پایه
مهندسی کامپیوتر
نظریه محاسباتی و ریاضیات
پیش نمایش صفحه اول مقاله
چکیده انگلیسی
Self-assembly using DNA origami methods requires determining a route for the scaffolding strand through the targeted structure. Here we provide strategies and software tools for determining optimal routes for reporter or scaffolding strands through graph-like (ball-and-rod) constructs. The approach applies to complex constructs, for example arbitrary geometric embeddings of graphs rather than surface meshes, lattice subsets, and meshes on higher genus surfaces than spheres. The software notably allows the user the flexibility of specifying ranked preferences for augmenting edges and for the possible configurations of branched junctions. The greater topological complexity of arbitrary graph embeddings and meshes on higher genus surfaces can result in scaffolding strand routes that are knotted in 3 space, so we also present necessary caveats for these settings.
ناشر
Database: Elsevier - ScienceDirect (ساینس دایرکت)
Journal: Theoretical Computer Science - Volume 671, 6 April 2017, Pages 69-78
Journal: Theoretical Computer Science - Volume 671, 6 April 2017, Pages 69-78
نویسندگان
Joanna A. Ellis-Monaghan, Greta Pangborn, Nadrian C. Seeman, Sam Blakeley, Conor Disher, Mary Falcigno, Brianna Healy, Ada Morse, Bharti Singh, Melissa Westland,