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March 29, 2011

INOH release 4.0 has been released (BioPAX Level2 and Level3 formats included).

The data files are available from our download site.

Signal Transduction Pathway Data and Metabolic Pathway Data.

Moreover, all INOH pathway diagram files are now available in BioPAX Level2 and Level3 formats.

Visit Download page and get each file separately or as a single archive.

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newly curated pathways
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BMP signaling in Drosophila
PDGF signaling pathway (Mammal)

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updated pathways
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TGF-beta_BMP Diagram(MolecularVariation)
Drosophila Toll-like receptor signaling
EGF signaling pathway Diagram (D. melanogaster, C. elegans)
FGF signaling pathway
IFN gamma signaling(JAK1 JAK2 STAT1)
IL-2 signaling(JAK1 JAK3 STAT5)
IL-4 signaling(JAK1 JAK3 STAT6)
IL-7 signaling(JAK1 JAK3 STAT5)
JAK STAT MolecularVariation 1
JAK-STAT pathway and regulation pathway Diagram (Canonical, D. melanogaster)
NGF signaling pathway
TGF-beta_super_family_signaling_pathway(canonical)
C. elegans endoderm induction Wnt signaling pathway Diagram
Canonical Wnt signaling pathway Diagram
Drosophila Wingless/Wnt signaling pathway Diagram
Mammalian Wnt signaling pathway Diagram
Xenopus axis formation Wnt signaling pathway Diagram
IL-1 signaling pathway (through JNK cascade)
IL-1 signaling pathway (through NF-kappaB)
IL-1 signaling pathway (through p38 cascade)
Toll-like receptor signaling pathway (through JNK cascade)
Toll-like receptor signaling pathway (trough NF-kappaB)
Toll-like receptor signaling pathway (p38 cascade)
CD4 T cell receptor signaling (ERK cascade)
CD4 T cell receptor signaling (JNK cascade)
CD4 T cell receptor signaling (NF-kB cascade)
CD4 T cell receptor signaling
GPCR signaling (G alpha s, PKA and ERK)
Notch signaling pathway Diagram (Canonical, Mammal, D. melanogaster, C. elegans)
JAK STAT MolecularVariation 2
Fas signaling pathway
GPCR Adenosine A2A receptor signaling pathway
TNFR1 signaling pathway
Alanine,Aspartic acid and Asparagine metabolism
Aminosugars metabolism
Arginine and Proline metabolism
Butanoate metabolism
Citrate cycle
FGF8 signaling (Mouse)
FGF8 signaling (Xenopus)
FGF signaling pathway (C. elegans)
FGF signaling pathway (D. melanogaster)
Folate metabolism
Fructose and Mannose metabolism
Galactose metabolism
Glutamic acid and Glutamine metabolism
Glycine and Serine metabolism
Glycolysis and Gluconeogenesis
Hedgehog signaling pathway (Canonical, Mammal, D. melanogaster)
Histidine degradation
IFN alpha signaling(JAK1 TYK2 STAT1 STAT2 STAT3)
IL-23 signaling(JAK2 TYK2 STAT3 STAT4)
Inositol phosphate metabolism
Lysine degradation
Methionine and Cysteine metabolism
Nicotinate and Nicotinamide metabolism
Pentose phosphate cycle
Phenylalanine degradation
Porphyrin metabolism
Propanoate metabolism
Prostaglandin and Leukotriene metabolism
Purine nucleotides and Nucleosides metabolism
Pyrimidine Nucleotides and Nucleosides metabolism
Pyruvate metabolism
Steroids metabolism
Tryptophan degradation
Tyrosine metabolism
Valine,Leucine and Isoleucine degradation
Insulin receptor signaling
Insulin receptor signaling (C. elegans)
Insulin receptor signaling (D. melanogaster)
Insulin receptor signaling (Mammal)

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BioPAX Level3 Statistics
=========================
Pathway 857
PathwayStep 773
BiochemicalPathwayStep 3196
Control 162
Catalysis 2614
Modulation 0
TemplateReactionRegulation 31
Conversion 81
BiochemicalReaction 1740
TransportWithBiochemicalReaction 0
ComplexAssembly 1108
Degradation 31
Transport 236
GeneticInteraction 0
MolecularInteraction 0
TemplateReaction 152
Complex 5801
Dna 661
DnaRegion 0
Protein 14493
Rna 218
RnaRegion 0
SmallMolecule 4415

===============
INOH Statistics
===============
-- NODE --
Diagram 102
EventCompound 4066
Event 139
Process 3348
EventRelation 542
Protein 14493
MolecularComplexCompound 5479
MolecularComplex 45
DNACompound 277
DNA 661
ChemicalSubstance 4415
RNA 218
Terminal 34

-- EDGE --
IN 6056
OUT 5131
Control 193
Catalyze 2614
Connected 3721
PASSING 3341
HomologousEvent 466
MolecularVariation 257
Identical 62

Posted by HiromiNakamura : March 29, 2011 02:39 PM

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