One Dimensional Boundaries for DNA Tile Self-Assembly

نویسندگان

  • Rebecca Schulman
  • Shaun Lee
  • Nick Papadakis
  • Erik Winfree
چکیده

In this paper we report the design and synthesis of DNA molecules (referred to as DNA tiles) with specific binding interactions that guide self-assembly to make one-dimensional assemblies shaped as lines, V’s and X’s. These DNA tile assemblies have been visualized by atomic force microscopy. The highly-variable distribution of shapes – e.g., the length of the arms of X-shaped assemblies – gives us insight into how the assembly process is occurring. Using stochastic models that simulate addition and dissociation of each type of DNA tile, as well as simplified models that more cleanly examine the generic phenomena, we dissect the contribution of accretion vs aggregation, reversible vs irreversible and seeded vs unseeded assumptions for describing the growth processes. The results suggest strategies for controlling self-assembly to make more uniformly-shaped assemblies.

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

On Times to Compute Shapes in 2D Tile Self-assembly

We study the times to grow structures within the tile self-assembly model proposed by Winfree, and the possible shapes that can be achieved. Our earlier work was confined to the growth of rectangular structures, in which the rates of attachment of border tiles and rule tiles were the same. By varying the relative rates one can engineer interesting new shapes, which have been observed in the lab...

متن کامل

Parallel Molecular Computations of pair-wise XOR using DNA “String Tile” Self- Assembly

DNA computing 1 potentially provides a degree of parallelism far beyond that of conventional silicon-based computers. A number of researchers 2 have experimentally demonstrated DNA computing in solving instances of the satisfiability problems. Self-assembly of DNA nanostructures is theoretically an efficient method of executing parallel computation where information is encoded in DNA tiles and ...

متن کامل

Programmable DNA self-assemblies for nanoscale organization of ligands and proteins.

We demonstrate the precise control of periodic spacing between individual protein molecules by programming the self-assembly of DNA tile templates. In particular, we report the application of two self-assembled periodic DNA structures, two-dimensional nanogrids, and one-dimensional nanotrack, as template for programmable self-assembly of streptavidin protein arrays with controlled density.

متن کامل

Reliable Self-assembly by Self-triggered Activation of Enveloped DNA Tiles

Although the design of DNA tiles has been optimised for efficient and specific self-assembly, assembly errors occur so often that applications for molecular computation remain limited. We propose the use of an enveloped tile consisting of a DXbase tile that carries a protector tile to suppress erroneous tile assembly. The design of the enveloped tile promotes the dissociation of the protector t...

متن کامل

Intrinsic universality in tile self-assembly requires cooperation

We prove a negative result on the power of a model of algorithmic self-assembly for which it has been notoriously difficult to find general techniques and results. Specifically, we prove that Winfree’s abstract Tile Assembly Model, when restricted to use noncooperative tile binding, is not intrinsically universal. This stands in stark contrast to the recent result that, via cooperative binding,...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

عنوان ژورنال:

دوره   شماره 

صفحات  -

تاریخ انتشار 2003