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Revision as of 12:58, 1 October 2005

Contents 1 Organisation 1.1 People 1.1.1 Students 1.1.2 Supervisors 1.1.3 Advisors 1.2 Timeline & Tasks 1.3 Groups 1.3.1 Modeling 1.3.2 Input Module 1.3.3 NOR Module 1.3.4 Documentation: 'todo' list 2 Project Documentation 2.1 Introduction 2.2 Concept 2.3 Modeling 2.4 Implementation 2.4.1 Input-module 2.4.2 NOR Module 2.4.3 Integration 2.5 Results 2.6 Discussion 2.7 References 2.7.1 Links 2.7.2 Papers 2.8 Glossary 2.9 Appendix 2.9.1 Previous Ideas

Organisation

People

Students

Simon Barkow	Christophe Dessimoz	Zlatko Franjcic
Dominic Frutiger	Robin Künzler	Urs A. Müller
Jonas Nart	Kristian Nolde	Alexander Roth
Tamara Ulrich	Giorgia Valsesia	Herve Vanderschuren

Supervisors

Jörg Stelling

Sven Panke

Eckart Zitzler

Advisors

Uwe Sauer	Martin Fussenegger	Andreas Hierlemann
Kay-Uwe Kirstein	Ruedi Aebersold

Timeline & Tasks

• Upcoming Talks
• Meetings
• Timeline and Tasklist
• Cloning Schedule

Groups

Modeling

• Members: Tamara, Kristian, Zlatko

This group is focused on mathematical modeling, illustration, simulations and overall design. There are no permanent members for this group. Anyone can join and leave the group anytime he/she wants. A group coordinator will be assigned at the first meeting.

• Meetings:

empty

Input Module

• Members: Christophe, Dominic (coordinator), Giorgia, Herve, Zlatko
• Meetings:

log 2005-08-17: Wednesday, 13:00 @ polyterrasse: Discussion of module, next steps, task distrib.
log 2005-08-22: Monday, 15:00 @ polyterrasse: Discussion of biol. solutions.
log 2005-09-12: Thursday, 17:30 @ teammeeting.

NOR Module

• Members: Alex (coordinator), Jonas, Robin, Simon, Tamara, Urs
• Meetings:

log 2005.08.17, Wednesday, 15:30  
2005.08.18, Thursday, 13:15
log 2005.08.22, Monday, 13:45
2005.08.25, Thursday 15:30
2005.08.29, Monday 14:00
2005.08.30, Tuesday 16:00
2005.09.06, Tuesday 08:00

Documentation: 'todo' list

Project Documentation

Introduction

Selected Project: We have voted that the Counter-approach would be the more suitable in the context of iGEM. The Counter-project selected for further development if time allow us possibly merged with one or two modules from the SO-Constructor as output modules.

Concept

Modeling

Implementation

Input-module

Module description: in a nutshell, this module has 2 system boundaries, both of which are characterized by PoPS. Its purpose is to take a single input PoPS and output 2 different PoPS. One of the outputs should be high and the other low when S is high and vice versa when S is low.

The iGEM-team at ETH decided to implement a modular and standardized Counter-system that can in principle be used to count any kind of biological event and generate any kind of output after a certain number N of events has been detected. The Counter-system can be split into 2 basic units, the NOR-module and the INPUT-module (outlined in red in the schematic below). This document deals with the implementation of the INPUT-module.

NOR Module

A NOR-module works as follows: There are two inputs and one output. The output is high if and only if the two inputs are low. In other words: The output is low whenever either one (or both) of the inputs are high.

Integration

Results

Discussion

References

Links

• Modeling and illustration tools

Papers

bulter04, atkinson03, bates05, keiler01, suetsugu03, sudesh00, römling02, ross91, sutherland01, Lai04, zogaj01, miller01, basu05, goryachev05, you04, Isalan01, Beerli02, Mani05, Beerli00, Beerli98, Dreier01, Dreier05, Klug05, Yang95, Segal99, Segal03,

Glossary

Appendix

Previous Ideas

This is the brainstorming and previous ideas section. In this section you will find other projects that had been pursued, as well as random ideas without too much consideration of feasibility, etc.