Download Abstract: Self-assembly is beginning to be seen as a practical

A DNA Motif to Insert a Sequence-Driven Device
into a DNA Array
Baoquan Ding, Nadrian Seeman
Abstract: Self-assembly is beginning to be seen as a practical vehicle for
computation. The assembly of DNA-based tiles into 2D periodic arrays
had been reported several times with a variety of motifs. In our work, one
layer of self-assembled DNA 2-D array will be used as the programmable
template. Sequence dependent nano-mechanical DNA devices will be
inserted into the array. Each device can enter into a bi-stable state, and that
this state could be controlled as well by the sequences of DNA. This
system can lead to the computation of an arbitrary boolean function or
creation of 2D DNA layers satisfying specific properties.
Structures of of the 2 states of the Sequence-Driven DNA Devices
TPX
TJX
Molecular Models of the 2 states of the Sequence-Driven DNA Devices
Simple Model of the Device and the Inserting into Array
PX
JX
PX
JX
JX
JX
PX
JX
PX
PX
1
2
3
4
5
6
7
8
PX
+ MARKER ---> MARKED PX
JX INERT
--->
+
PX
JX
JX
JX
PX
JX
PX
PX
1
2
3
4
5
6
7
8
Model of the Array that Contain Different State Devices
A
B
ABC'D' Array--All JX
Cp
Cp'
Cj
Cj'
Dp
Dp'
Dj
Dj'
ABC'D' Array--Specifically Mixed as JX and PX
Cp'+M
Cj'+M
Dp'+M
AB Array
Dj'+M
ABC'D' Array--PX-State Tiles Marked
Electrophoresis Analysis of the Formation of the Device
Electrophoresis Analysis of Operation of the Device
TX 2D DNA Array that Works as the Template
2D Array with Protruding Marker Tiles
One State of Modified Device that Will be Inserted into Array
Template Array that Contain Different States Devices
Summary:
Sequence-driven DNA devices that will be inserted into 2D
DNA array have been constructed. The template array has
been designed, and construction and AFM analysis are
currently in progress.