Tag: Nanostructure

NanoTiler 0.11.1 – Design of RNA Nanostructures

NanoTiler 0.11.1

:: DESCRIPTION

NanoTiler is a Java application for the design of RNA nanostructures. Among other things, it can accomplish the following: 1) Detection, extraction and annotation of RNA structural elements, 2) Use of RNA building blocks for assemblying larger structures, 3) Combinatorial search of building blocks 4) Optimization of building block positions 5) Topology classification 6) Sequence Optimization (i.e. sequence design for self-assembly into the given topology).

::DEVELOPER

Shapiro Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/Windows/MacOsX
  • Java

:: DOWNLOAD

 NanoTiler

:: MORE INFORMATION

Citation:

Methods. 2011 Jun;54(2):239-50. Epub 2010 Dec 14.
Use of RNA structure flexibility data in nanostructure modeling.
Kasprzak W, Bindewald E, Kim TJ, Jaeger L, Shapiro BA.

Cadnano 2.5 – Design Three-dimensional DNA Origami Nanostructures

Cadnano 2.5

:: DESCRIPTION

Cadnano simplifies and enhances the process of designing three-dimensional DNA origami nanostructures. Through its user-friendly 2D and 3D interfaces it accelerates the creation of arbitrary designs. The embedded rules within Cadnano paired with the finite element analysis performed by cando, provide relative certainty of the stability of the structures.

::DEVELOPER

Cadnano Team

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

 Cadnano

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2009 Aug;37(15):5001-6. Epub 2009 Jun 16.
Rapid prototyping of 3D DNA-origami shapes with caDNAno.
Douglas SM, Marblestone AH, Teerapittayanon S, Vazquez A, Church GM, Shih WM.