Pathway Analysis
AFCS http://www.afcs.org/
ArrayXpath http://www.snubi.org/software/ArrayXPath/
Automated Function Prediction  http://biofunctionprediction.org/
BIND http://bond.unleashedinformatics.com/Action?
BioCarta - cell signaling http://www.biocarta.com/genes/CellSignaling.asp
BioInfoBank http://cancer.bioinfo.pl/
BioPax http://www.biopax.org/
BioPAX Wiki http://biopaxwiki.org/cgi-bin/moin.cgi/Biological_software_supporting_BioPAX
BOND Web Portal http://bond.unleashedinformatics.com/
Brite http://www.genome.jp/kegg/brite.html
BW Main - Pathways http://homepage.univie.ac.at/herbert.mayer/MainPATH.html
Cell Circuits http://www.cellcircuits.org/
cell signaling http://www.cellsignal.com/index.jsp
CellDesigner http://www.systems-biology.org/cd/
CellML http://www.cellml.org/models
cellular system modelling http://jjj.biochem.sun.ac.za/
cPath http://cbio.mskcc.org/cpath/
DDIB http://www.ddib.org/DIDWeb/index.html
DOQCS http://doqcs.ncbs.res.in/
DragonFamilies http://pevsnerlab.kennedykrieger.org/dragonpaths.htm
EndoNet http://endonet.sybig.de/
Explain http://www.biobase-international.com/pages/index.php?id=286
GenMapp http://www.genmapp.org/
GON http://genome.ib.sci.yamaguchi-u.ac.jp/~gon/index.html
gpDB http://biophysics.biol.uoa.gr/gpDB/index.jsp
HPID http://wilab.inha.ac.kr/hpid/
HPRD http://www.hprd.org/query
INOH http://www.inoh.org/
intact http://www.ebi.ac.uk/intact/site/index.jsf
interactome http://interactome.org/index.php/Main_Page
InterViewer http://interviewer.inha.ac.kr/
IPA http://www.ingenuity.com/
KEGG BRITE Database http://www.genome.jp/kegg/brite.html
KEGG PATHWAY Database http://www.genome.jp/kegg/pathway.html
KEGG PATHWAY genes http://www.genome.jp/dbget-bin/www_bget?pathway+hsa04350
MIM NCI http://discover.nci.nih.gov/mim/
NetPath http://www.netpath.org/
NetPro http://www.molecularconnections.com/products.html
NetSlim http://www.netpath.org/netslim/IL_1_pathway.html
oncomine http://www.oncomine.org/main/index.jsp
Panther http://www.pantherdb.org/
PANTHER - Pathways http://www.pantherdb.org/pathway/
PANTHER - Prowler http://www.pantherdb.org/panther/prowler.jsp
PathBLAST http://www.pathblast.org/
Pathguide http://www.pathguide.org/
PathJam - Biological Pathway Integration Tool http://www.pathjam.org/
PathVisio - WikiPathways http://www.pathvisio.org/
pathway analysis http://folk.uio.no/junbaiw/mgraph/mgraph.html
pathway analysis http://genmapp.org/
Pathway Commons http://www.pathwaycommons.org/pc/
Pathway Tools - GMOD http://gmod.org/wiki/Pathway_Tools
Pathway Tools Information Site http://bioinformatics.ai.sri.com/ptools/
PIANA http://sbi.imim.es/piana/
PIM http://proteome.wayne.edu/PIMproject1.html
poogle http://mips.gsf.de/proj/ppi/poogle.html
PPID http://www.anc.ed.ac.uk/mscs/PPID/
pstiing http://pstiing.licr.org/
qpath http://www.cs.tau.ac.il/~roded/qpath.pdf
Reactome http://www.reactome.org/
SPIKE http://www.cs.tau.ac.il/~spike/
string http://string.embl.de/
swoop - Google Code http://code.google.com/p/swoop/
TRANSPATH  http://www.gene-regulation.com/pub/databases/transpath/6.0/doc/search/TFP_search.html
WebGestalt  http://www.webgestalt.org