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Pathways etc
KEGG
The Kyoto encyclopedia of genes and genomes. Draws maps of metabolic
pathways including active links to sequence data on the proteins that
catalyse the steps, and the genes that encode them.
Biochemical pathways ExPASy Molecular Biology
Server. The ExPASy (Expert Protein Analysis System) proteomics server of
the Swiss Institute of Bioinformatics (SIB) is dedicated to the analysis of
protein sequences and structures as well as 2-D PAGE
Ligand LIGAND is a
composite database consisting of: COMPOUND (a collection of chemical compounds
that are related to various cellular processes) REACTION (a collection of
reactions, mostly enzymatic reactions, involving those compounds) ENZYME
(Enzyme Nomenclature by IUBMB and IUPAC)
123genomics 123Genomics, a Genomics,
Proteomics and Bioinformatics Knowledge Base
Computer Simulation of
Metabolism This site describes some simple computer
routines that can be used to interpret stable isotope and radioisotope
tracer kinetics in terms of metabolic fluxes and compartmentation of pools.
EMP
project queries for pathways, metabolic outlines, software,
nomenclature (enzymes) etc.
Boehringer
Mannheim "Biochemical Pathways"
This page gives access to the digitized version of the Boehringer Mannheim
"Biochemical Pathways" wall chart. Please note that the German
publishing company Spektrum Akademischer Verlag Gmbh, Slevogtstrasse 3-5,
69126 Heidelberg owns the rights for commercial applications of the
Biochemical Pathways. If you wish to use any of the information obtained
from this site commercially please contact Ms. Ina Schibel at Spektrum
Verlag for approval.
GEPASI Gepasi is a
software package for modeling biochemical systems. It simulates the
kinetics of systems of biochemical reactions and provides a number of tools
to fit models to data, optimize any funtion of the model, perform metabolic
control analysis and linear stability analysis.
PathDB PathDB™ is
a functional prototype research tool for biochemistry and functional
genomics. One of the key underlying philosophies of our project is to
capture discrete metabolic steps. This allows us to build tools to
construct metabolic networks de novo from a set of defined steps.
Biocyc is a
collection of pathway/genome databases, all based on the Pathway Tools System
developed at SRI. Two of these databases, Ecocyc for E. coli and Metacyc
(pathways and enzymes from 150 species) are literature derived
pathway/genome databases. Other Biocyc databases are computationally
derived.
Aracyc
is a literature derived pathway/genome database, curated by TAIR for
Arabidopsis. This system is also based on the Pathway Tools system.
WIT WIT is a
www-based system to support the curation of function assignments made to
genes and the development of metabolic models.
Metabolomics Companies
Metanomics
Phenomenome
Discoveries
LemnaTech
Cogenics (previously
Paradigm Genetics)
Large
Scale Biology Corp.
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