User:Jarle Pahr/Systems biology: Difference between revisions
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GeneCircuits: http://ccsb.fudan.edu.cn/genecircuits/ | GeneCircuits: http://ccsb.fudan.edu.cn/genecircuits/ | ||
Generic Model Organism Database (GMOD) project: http://www.gmod.org/wiki/Main_Page | |||
=Petri nets= | =Petri nets= |
Revision as of 03:58, 24 May 2013
Notes on Systems Biology topics and software
Organizations and websites
ISSB - International Society for Systems Biology: http://www.issb.org/
International Conference on Systems Biology: http://www.icsb2013.dk/
Persons/research labs
Bernhard Ø Palsson: http://gcrg.ucsd.edu/Researchers/Palsson
Publications - Systems Biology Research Group at UCSD: http://systemsbiology.ucsd.edu/publications
Adam Feist: http://systemsbiology.ucsd.edu/Researchers/Feist
Eberhard Voit: http://www.bme.gatech.edu/facultystaff/faculty_record.php?id=81
Hiroaki Kitano: http://en.wikipedia.org/wiki/Hiroaki_Kitano
Uri Alon: http://www.weizmann.ac.il/mcb/UriAlon/
Systems Biology Institute: http://www.sbi.jp/
Databases
TF checkpoint: http://norstore-trd-bio0.hpc.ntnu.no/
Software
Gene2Pathway: http://www.bioconductor.org/packages/2.11/bioc/html/gene2pathway.html
OpenCOBRA: http://opencobra.sourceforge.net/openCOBRA/Welcome.html
http://sourceforge.net/projects/opencobra/
PyCobra developer forum: http://sourceforge.net/projects/opencobra/forums/forum/1841961
OpenCOBRA forums: http://sourceforge.net/projects/opencobra/forums
GeneCircuits: http://ccsb.fudan.edu.cn/genecircuits/
Generic Model Organism Database (GMOD) project: http://www.gmod.org/wiki/Main_Page
Petri nets
http://www.scholarpedia.org/article/Petri_net
Gene regulation
Simulation of E. coli Gene Regulation including Overlapping Cell Cycles, Growth, Division, Time Delays and Noise : http://www.plosone.org/article/info:doi%2F10.1371%2Fjournal.pone.0062380
Metabolic modelling
Models
RECON 2: http://www.nature.com/nbt/journal/vaop/ncurrent/full/nbt.2488.html
Bibliography
In silico method for modelling metabolism and gene product expression at genome scale: http://www.nature.com/ncomms/journal/v3/n7/full/ncomms1928.html