User contributions
From 2013.igem.org
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- 13:17, 1 September 2013 (diff | hist) Team:Groningen
- 13:17, 1 September 2013 (diff | hist) Team:Groningen
- 13:16, 1 September 2013 (diff | hist) Team:Groningen/Navigation/Heatmotility
- 13:15, 1 September 2013 (diff | hist) Team:Groningen/Navigation/Heatmotility
- 13:12, 1 September 2013 (diff | hist) Team:Groningen/Navigation/Heatmotility
- 13:11, 1 September 2013 (diff | hist) Team:Groningen/Navigation/Heatmotility
- 22:05, 31 August 2013 (diff | hist) Team:Groningen/Modelling/31 August 2013 (top)
- 22:04, 31 August 2013 (diff | hist) N Team:Groningen/Modelling/31 August 2013 (Created page with "<p>Successfully optimized the VP and TM1 subsystems for exact adaption. The plots for VP and TM1 concentrations, which control the feedback, are shown below. The simulation is in...")
- 21:58, 31 August 2013 (diff | hist) N File:VP.jpg (VP plot for exact adaption) (top)
- 21:58, 31 August 2013 (diff | hist) N File:TM1.jpg (TM1 plot for exact adaption) (top)
- 12:14, 31 August 2013 (diff | hist) Team:Groningen/Modelling/30 August 2013 (top)
- 12:13, 31 August 2013 (diff | hist) Team:Groningen/Modelling/29 August 2013 (top)
- 22:07, 28 August 2013 (diff | hist) N Team:Groningen/Modelling/28 August 2013 (Created page with "Simplified the model by decoupling CheA_P reduction due to CheB, CheV and CheY phosphorylation. Optimized subsystems seperately. Exact adaption seemed to be present to some degre...") (top)
- 22:05, 27 August 2013 (diff | hist) N Team:Groningen/Modelling/27 August 2013 (Created page with "<p> Rewrote the equations as equillibrium equations. The summed difference of these equations was then used as an error function, together with the difference in YP concentration...") (top)
- 22:03, 27 August 2013 (diff | hist) N File:Equillibriaequations.jpg (top)
- 22:01, 27 August 2013 (diff | hist) N Team:Groningen/Modelling/26 August 2013 (Created page with "Tested the model with the new setup. It didnt work.") (top)
- 22:21, 25 August 2013 (diff | hist) Team:Groningen/Modelling/25 August 2013 (top)
- 19:20, 25 August 2013 (diff | hist) m Team:Groningen/Modelling/22 August 2013 (top)
- 19:16, 25 August 2013 (diff | hist) Team:Groningen/Modelling/25 August 2013
- 19:15, 25 August 2013 (diff | hist) m Team:Groningen/Modelling/22 August 2013
- 19:13, 25 August 2013 (diff | hist) N Team:Groningen/Modelling/25 August 2013 (Created page with "<p>Found out that there is no solution for our current setup. The negative feedback is incapable of fully compensating for the increase in activity caused by stimulatory ligands....")
- 10:35, 25 August 2013 (diff | hist) Team:Groningen/Modelling/24 August 2013 (top)
- 22:28, 24 August 2013 (diff | hist) Team:Groningen/Modelling/24 August 2013
- 22:27, 24 August 2013 (diff | hist) m Team:Groningen/Modelling/24 August 2013
- 22:26, 24 August 2013 (diff | hist) N Team:Groningen/Modelling/24 August 2013 (Created page with "<p>After closer inspection, the k5 calculation was still wrong as it didn't take the feedback into account. k5 is now determined by; k5_lower_bound + X - Y. </p> <p>Where X= Ta*x...")
- 22:14, 24 August 2013 (diff | hist) N Team:Groningen/Modelling/23 August 2013 (Created page with "Revised k5 parameter calculation. Tried different error functions and different settings for the optimization, it all failed.") (top)
- 08:59, 23 August 2013 (diff | hist) Team:Groningen/Team/claudio (top)
- 08:13, 23 August 2013 (diff | hist) Team:Groningen/Team/mike (top)
- 17:21, 22 August 2013 (diff | hist) Team:Groningen/Modelling/22 August 2013
- 17:20, 22 August 2013 (diff | hist) Team:Groningen/Modelling/22 August 2013
- 17:20, 22 August 2013 (diff | hist) Team:Groningen/Modelling/22 August 2013
- 17:19, 22 August 2013 (diff | hist) Team:Groningen/Modelling/22 August 2013
- 17:19, 22 August 2013 (diff | hist) Team:Groningen/Modelling/22 August 2013
- 17:18, 22 August 2013 (diff | hist) Team:Groningen/Modelling/22 August 2013
- 14:55, 21 August 2013 (diff | hist) Team:Groningen/Modelling/21 August 2013 (top)
- 14:06, 21 August 2013 (diff | hist) Team:Groningen/Modelling/21 August 2013
- 13:50, 21 August 2013 (diff | hist) Team:Groningen/Modelling/21 August 2013
- 13:49, 21 August 2013 (diff | hist) N File:Goal2.jpg (Results of simulated annealing implementation for dummy problem and the goal set to 0.4) (top)
- 13:48, 21 August 2013 (diff | hist) N File:Goal1.jpg (Simulated annealing result for dummy problem with goal=1.9) (top)
- 13:48, 21 August 2013 (diff | hist) N Team:Groningen/Modelling/21 August 2013 (Created page with "Today we identified another faulty differential equation, and we implemented the simulating annealing algorithm for a dummy problem. The error function was simply the distance be...")
- 13:44, 21 August 2013 (diff | hist) N Team:Groningen/Modelling/20 August 2013 (Created page with "Today we discussed the model in detail and brainstormed about how concepts such as equillibirum could be used as error functions to be minimized by the simulated annealing algori...") (top)
- 21:43, 19 August 2013 (diff | hist) N Team:Groningen/Modelling/19 August 2013 (Created page with "Today we debugged the simulation in MATLAB; there was an error in the Runga Kutta method, and one of the formulas was entered incorrectly. Furthermore, the method for using TM0, ...") (top)
- 11:13, 15 August 2013 (diff | hist) Team:Groningen/Team/mike
- 19:06, 14 August 2013 (diff | hist) N Team:Groningen/Modelling/14 August 2013 (Created page with "Today we implemented the Kunga Kutta 4 numerical method to approximate the differential equations that describe our chemotaxis system. Although the parameters are all wrong, the ...") (top)
- 19:04, 14 August 2013 (diff | hist) Team:Groningen/Modelling/13 August 2013 (top)
- 19:03, 14 August 2013 (diff | hist) N File:Chemometers.png (top)
- 18:58, 14 August 2013 (diff | hist) N Team:Groningen/Modelling/13 August 2013 (Created page with "Today we decided to keep track of our modelling log... because backlogging is a pain. We finished writing up the differential equations for the chemotaxis model, and have organ...")
- 18:58, 14 August 2013 (diff | hist) N File:Chemokwations.png (Equations for chemotaxis) (top)
- 14:52, 20 July 2013 (diff | hist) N Team:Groningen/Modelling/18 July 2013 (Created page with "Finished constructing synthetic genes that we want to order. A total of 16 genes were constructed, which included features such as ribosome binding sites, linker domains, tags, s...")
- 14:51, 20 July 2013 (diff | hist) N Team:Groningen/Modelling/12 July 2013 (Created page with "Coupled the genetic algorithm with RNAStructures software so that the codon selection for bacillus could also be optimized so as to minimize the number of RNA secondary structure...")
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