Skip to content Skip to navigation
University of Warwick
  • Study
  • |
  • Research
  • |
  • Business
  • |
  • Alumni
  • |
  • News
  • |
  • About

University of Warwick
Publications service & WRAP

Highlight your research

  • WRAP
    • Home
    • Search WRAP
    • Browse by Warwick Author
    • Browse WRAP by Year
    • Browse WRAP by Subject
    • Browse WRAP by Department
    • Browse WRAP by Funder
    • Browse Theses by Department
  • Publications Service
    • Home
    • Search Publications Service
    • Browse by Warwick Author
    • Browse Publications service by Year
    • Browse Publications service by Subject
    • Browse Publications service by Department
    • Browse Publications service by Funder
  • Help & Advice
University of Warwick

The Library

  • Login
  • Admin

Data for Synthesis and Analysis of Biomolecular Circuits using DNA Strand Displacement

Tools
- Tools
+ Tools

Eyriay, Iuliia (2022) Data for Synthesis and Analysis of Biomolecular Circuits using DNA Strand Displacement. [Dataset]

[img] Plain Text (Readme file)
Readme.txt - Published Version
Available under License Creative Commons Attribution 4.0.

Download (1089b)
[img] Archive (ZIP) (Dataset)
Chapter 3.zip - Published Version
Available under License Creative Commons Attribution 4.0.

Download (41Kb)
[img] Archive (ZIP) (Dataset)
Chapter 4.zip - Published Version
Available under License Creative Commons Attribution 4.0.

Download (562Kb)
Official URL: http://wrap.warwick.ac.uk/169977/

Request Changes to record.

Abstract

Supplementary materials supporting PhD thesis submission titled "Synthesis and Analysis of Biomolecular Circuits using DNA Strand Displacement"

Item Type: Dataset
Subjects: Q Science > QA Mathematics > QA76 Electronic computers. Computer science. Computer software
Q Science > QH Natural history > QH301 Biology
T Technology > TA Engineering (General). Civil engineering (General)
Divisions: Faculty of Science, Engineering and Medicine > Engineering > Engineering
Type of Data: Datasets and codes
Library of Congress Subject Headings (LCSH): Synthetic biology, Systems biology, Bioengineering, Molecular computers, DNA -- Synthesis
Publisher: University of Warwick, School of Engineering
Official Date: 12 October 2022
Dates:
DateEvent
12 October 2022Published
11 October 2022Available
11 October 2022Created
Status: Not Peer Reviewed
Publication Status: Published
Media of Output (format): .m
Access rights to Published version: Open Access
Copyright Holders: University of Warwick
Description:

1. Chapter3.zip contains the relevant files that can be used to recreate the result of Chapter 3 of Synthesis and Analysis of Biomolecular Circuits using DNA Strand Displacement. In particular:
- Codes for DSD leaks: the codes can be run using the Visual DSD executable, which can be downloaded from https://ph1ll1ps.github.io/project/visualdsd
- TF-to-DSD compiler: the code can be run in MATLAB; the output file can be run in Visual DSD.

2. Chapter4.zip contains the relevant files that can be used to recreate the result of Chapter 4 of Synthesis and Analysis of Biomolecular Circuits using DNA Strand Displacement. In particular:
- Critical leaks detection: the automated MATLAB tool for identifying the most critical leak reactions in the TMT and FIT circuits together with the .txt files containing the list of reactions. The steps are listed inside the MATLAB-files.
- Determining programmable time delay: MATLAB tool for identifying the concentration of the Delay complex needed to achieve the expected time delay.
- SIMULINK models for the full leak TMT and FIT circuits.

RIOXX Funder/Project Grant:
Project/Grant IDRIOXX Funder NameFunder ID
CASE Voucher 16000070[EPSRC] Engineering and Physical Sciences Research Councilhttp://dx.doi.org/10.13039/501100000266
UNSPECIFIEDMicrosoft Researchhttp://dx.doi.org/10.13039/100006112
Contributors:
ContributionNameContributor ID
DepositorEyriay, Iuliia352173

Request changes or add full text files to a record

Repository staff actions (login required)

View Item View Item

Downloads

Downloads per month over past year

View more statistics

twitter

Email us: wrap@warwick.ac.uk
Contact Details
About Us