Search Results for "circadian"

This code is a dedicated Kinetic Monte Carlo (KMC) algorithm which simulates a model of the post-translational Kai circadian clock. The code allows you to simulate the Kai system at the level of individual KaiC hexamers and monomers and explicitly tracks the turnover of every ATP nucleotide. Apart from ATP hydrolysis, all reactions obey detailed balance. The application of the code is described in our article titled "A Thermodynamically consistent model of the post-translational Kai circadian...

BioDare (Biological Data Repository) was developed under the multi-site ROBuST project (http://hallidaylab.bio.ed.ac.uk/ROBuST.html) to support data exchange inside the project. It is a web application which allows data-sharing (including public dissemination), data-processing and analysis, with the main focus on time-series data produced in circadian experiments. The main features of BioDare are: - an online repository for experimental data accompanied by extensive metadata - generation...

The Arduino routines (.ino) control light-on timing under various entrainment schemes and measures general movements using PIR and the light level using CdS in three animal chambers. Requires Arduino 1.0 and Arduino hardwares (Uno or Mega). 1. _3ChambersEPLPDD.ino: 12-12 LD to long photoperiod 2. _3ChambersTCycle.ino: 12-12 LD to T=23/T=25 cycles (Note: A critical error has been found in _3ChambersTCycle.ino. It will not be available until the error is fixed. 14-SEP-2012)

A MATLAB package for wavelet analysis of circadian rhythms with both discrete (Daubechies) and continuous (Morlet) wavelets, as well as tools for batch processing of multiple time series, all accessible through a graphical user interface.

A user-friendly interface for running simulations of the gene networks comprising the circadian clock. Modules allow the simulation of experimental protocols with just a few mouse clicks. Users can fine-tune simulations to suit their particular interests.