Research Data Leeds Repository

MATLAB code for the analysis of proton transport activity in single liposomes.

Mengqiu, Li and Tuma, Roman and Jeuken, Lars J.C. (2017) MATLAB code for the analysis of proton transport activity in single liposomes. University of Leeds. [Dataset] https://doi.org/10.5518/150

Dataset description

The code is adapted from the code the authors used to generate the data published in the associated papers. Minor improvements and bug fix have been added since the publication in the Journal of the American Chemical Society. The shared code does not contain all the code the authors used, but forms the basis of the data analysis.  The code is for fitting the time-resolved data (traces) of individual lipid vesicles with the method detailed in the paper. The code for getting the traces from the imaging data is not shared because it is specifically designed for the experimental set-up, but has been described in detail in the paper. Similar functions are available in many other softwares.

Keywords:	single-enzyme; heme-copper oxidase; MATLAB; automated analysis; time-trace; cytochrome bo3; proton pumping
Subjects:	C000 - Biological sciences > C700 - Molecular biology, biophysics & biochemistry > C770 - Biophysical science
Divisions:	Faculty of Biological Sciences > School of Biomedical Sciences Faculty of Biological Sciences > Astbury Centre for Structural Molecular Biology
Related resources:	Location Type https://doi.org/10.1021/jacs.5b08798 Publication https://doi.org/10.5518/151 Dataset
License:	Creative Commons Attribution 4.0 International (CC BY 4.0)
Date deposited:	16 Jun 2017 11:27
URI:	http://archive.researchdata.leeds.ac.uk/id/eprint/158
Additional details Additional details Creators: Creators ORCID Other ID Email Primary affiliation Primary affiliation ID Primary affiliation ID type Secondary affiliation Secondary affiliation ID Secondary affiliation ID type Mengqiu, Li https://orcid.org/0000-0002-1905-9497 Tuma, Roman https://orcid.org/0000-0003-0047-0013 Jeuken, Lars J.C. https://orcid.org/0000-0001-7810-3964 Type of data: Dataset Research funders: ERC Grant numbers: 280518 Publication date: 2017 Resource language: English Metadata language: English Publisher: University of Leeds Contact Email Address: L.J.C.Jeuken@leeds.ac.uk Last Modified: 16 Jun 2017 22:45

Files

Documentation

Read me file [2kB] Read me file [2kB] Read me file [2kB] Visible to: Anyone File name: Read_me.txt Content type: Documentation Description: Dataset description Mime-Type: text/plain License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 2kB

Program

Main MATLAB source code [7kB] Main MATLAB source code [7kB] Main MATLAB source code [7kB] Visible to: Anyone File name: open_data_script.m Content type: Program Description: The code for fitting the time-resolved data (traces) of individual lipid vesicles. Includes a description of the form of the metadata files. Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 7kB

Adjusted r squared [1kB] Adjusted r squared [1kB] Adjusted r squared [1kB] Visible to: Anyone File name: adjusted_r_squared_2.m Content type: Program Description: Adjusted r squared - called by Main MATLAB code Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 1kB

Exponential leaking obj [1kB] Exponential leaking obj [1kB] Exponential leaking obj [1kB] Visible to: Anyone File name: exp_leaking_obj_4.m Content type: Program Description: Exponential leaking obj - called by Main MATLAB code Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 1kB

Exponential leaking [1kB] Exponential leaking [1kB] Exponential leaking [1kB] Visible to: Anyone File name: exponential_leaking_3.m Content type: Program Description: Exponential leaking - called by Main MATLAB code Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 1kB

Five line fitting [2kB] Five line fitting [2kB] Five line fitting [2kB] Visible to: Anyone File name: fiveline_fitting.m Content type: Program Description: Five line fitting - called by Main MATLAB code Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 2kB

Four line fitting [2kB] Four line fitting [2kB] Four line fitting [2kB] Visible to: Anyone File name: fourline_fitting.m Content type: Program Description: Four line fitting - called by Main MATLAB code Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 2kB

Three line fitting [2kB] Three line fitting [2kB] Three line fitting [2kB] Visible to: Anyone File name: threeline_fitting.m Content type: Program Description: Three line fitting - called by Main MATLAB code Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 2kB

Two line fitting [2kB] Two line fitting [2kB] Two line fitting [2kB] Visible to: Anyone File name: twoline_fitting.m Content type: Program Description: Two line fitting - called by Main MATLAB code Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 2kB

One line fitting [1kB] One line fitting [1kB] One line fitting [1kB] Visible to: Anyone File name: oneline_fitting.m Content type: Program Description: One line fitting - called by Main MATLAB code Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 1kB

Open data fit pp [7kB] Open data fit pp [7kB] Open data fit pp [7kB] Visible to: Anyone File name: open_data_fit_pp.m Content type: Program Description: Open data fit pp - called by Main MATLAB code Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 7kB

Open data fit wp [24kB] Open data fit wp [24kB] Open data fit wp [24kB] Visible to: Anyone File name: open_data_fit_wp.m Content type: Program Description: Open data fit wp - called by Main MATLAB code Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 24kB

Sum squared total [1kB] Sum squared total [1kB] Sum squared total [1kB] Visible to: Anyone File name: sumsquaredtotal.m Content type: Program Description: Sum squared total - called by Main MATLAB code Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 1kB

Turning point check [2kB] Turning point check [2kB] Turning point check [2kB] Visible to: Anyone File name: turningpointcheck.m Content type: Program Description: Turning point check - called by Main MATLAB code Mime-Type: application/vnd.wolfram.mathematica.package License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 2kB