You can use this
website to download freeware applications (see links below) written by
G. Mashanov (The Francis Crick Institute, UK). This software was developed for the
detection/tracking, analysis, and modelling of single molecule dynamics (movement and binding kinetics)
in live cells, but it can be used for other purposes. You can download our
real and simulated data samples and ImageJ Plugins to import and export your data
files.
The software was
compiled using CBuilder_XE7. It will run under Win32 or Win64 OS and does not
require installation or registration:
1. Download required
.zip file (see below). The archives contain ".exe" files (32 or 64 bit), and corresponding “.dll”
files (“.bpl” libraries).
2.
Unzip these files
into selected folder on your computer.
3.
Run the required “.exe”
file.
You may manually
associate “.gmv” data files (using Windows Explorer) with GMimPro and “.gmi” files with Motility to open data files by clicking
on it. I am happy to answer your specific questions gmashanov@gmail.com but, please, read the help
files (.pdf) (and corresponding publications) first.
Yours
Gregory Mashanov
GMcellModel is a computer model simulating mobility and binding kinetics of the single fluorescent molecules (both cytoplasm and membrane associated) in a virtual cell. It generates a sequence of images (8-bit “.bmp” or “.gmv” format), each containing summed images of all fluorescent objects emitting light under given illumination conditions with realistic levels of noise and emission fluctuations. These sequences can be analysed by GMimPro or other imaging software (e.g., ImageJ). You can load few basic scenarios (downloaded folder GMcellModelScenario) and run the model to test it. See JRS Interface 2014 publication for full description of the employed algorithms.
Motility is a satellite software designed for statistical analysis of tracking data (.gmi) generated by GMimPro. You can add many individual “.gmi” files together and create distributions of: intensity, mobility, velocity, and other paprameters. You can create plots of average intensity, mobility, and "distance from the origin" versus time, generate MSD versus dT plots, and others. You can apply thresholds to separate slow-fast, dim-bright, short-long lived objects, and so on. The graphs can be printed, saved as “.bmp”, and exported as “.txt” files for future analysis or publishing.
ImageJ plug-ins are written by Dr. J.E. Molloy (The
Crick Institute, UK).
1. Copy plugins into ImageJ
plugins folder
2. Open ImageJ and load your image
sequence
3. Input scales and time interval
to the sequence properties if needed
4. Use“GMV Writer” in “Plugins”
menu to save your data as “.gmv” file.
Alternatively you can save your data as RAW data file and use File/Import Data in GMimPro to convert data into GMimPro format (".gmv").
Download 64bit “.exe” files and libraries
Download ImageJ Plugins for GMimPro
Download GMinfectionSpreadModel
(model simulating infection spread in a structured enviroment)
GFP_inVitro - single GFP molecules attached to glass via antiGFP ab
(in vitro, TIRF microscopy)
Cy3B_inVitro - single fluorescent molecules of Cy3B dye attached to
coverslip (in vitro, TIRF microscopy)
GFP_A1_HEK - Adenosine GPCR A1
receptors (GFP tagged) at plasma membrane of live HEK cell (37°C, TIRF microscopy)
Cy3B-Tz_M1_CHO
- Muscarinic Acetylcholine
GPCR M1 receptors at plasma membrane of live CHO cell (23°C, labelled with Cy3B-telenzepine, TIRF microscopy)
Cy3B-Tz_M2_CHO
- Muscarinic Acetylcholine
M2 receptors at plasma membrane of live CHO cell (23°C, labelled with Cy3B-telenzepine, TIRF microscopy)
Cy3B-Tz_M2_HL1
- Muscarinic
Acetylcholine GPCR M2 receptors at plasma membrane of live HL1 cell @23˚C (37°C,
labelled with Cy3B-telenzepine, TIRF microscopy)
Cy3B-Tz_M2_HeartSlice
- Muscarinic
Acetylcholine GPCR M2 receptors at plasma membrane of ex-vivo mice
heart slice (23°C, labelled with Cy3B-telenzepine, TIRF
microscopy)
GFP_KCNQ1_HEK - KCNQ1 potassium channels. GFP
tagged at plasma membrane of live HEK cell (37°C, TIRF microscopy)