INOH Pathway Database

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newly curated data
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1. 440 complexes with detailed subunit structure information (e.g. IKK complex, IFNalphaR)
2. 33 events and 7 cascades (e.g. degradation of I-KappaB, JNK cascade, CD28 signaling)

B cell receptor signaling
BMP2 signaling(through TAK1)
BMP2 signaling(TGF-beta_signaling MolecularVariation)
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
Drosophila IMD pathway
Drosophila Toll-like receptor signaling
Growth hormone signaling(JAK2 STAT5)
IFN alpha signaling(JAK1 TYK2 STAT1)
IFN alpha signaling(JAK1 TYK2 STAT1 STAT2)
IFN alpha signaling(JAK1 TYK2 STAT1 STAT3)
IFN alpha signaling(JAK1 TYK2 STAT3)
IFN gamma signaling(JAK1 JAK2 STAT1)
IL-10 signaling(JAK1 TYK2 STAT3)
IL-12 signaling(JAK2 TYK2 STAT4)
IL-1 signaling pathway (through JNK cascade)
IL-1 signaling pathway (through NF-kappaB)
IL-1 signaling pathway (through p38 cascade)
IL-2 signaling(JAK1 JAK3 STAT5)
IL-3 signaling(JAK2 STAT5)
IL-4 signaling(JAK1 JAK3 STAT6)
IL-6 signaling(JAK1 JAK2 STAT3)
IL-7 signaling(JAK1 JAK3 STAT5)
JAK STAT MolecularVariation 1
JAK STAT MolecularVariation 2
LIF signaling(JAK1 JAK2 STAT3)
TGF-beta signaling(through TAK1)
TPO signaling(JAK2 STAT3)
Toll-like receptor signaling pathway (through ECSIT, MEKK1, MKKs, JNK cascade)
Toll-like receptor signaling pathway (through ECSIT, MEKK1, MKKs, 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)

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updated pathways
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EGF signaling pathway
FGF signaling pathway
GPCR Dopamine D1like receptor
GPCR GroupI metabotropic glutamate receptor
GPCR signaling (G alpha q)
GPCR signaling (G alpha s, Epac and ERK)
GPCR signaling (G alpha s, PKA and ERK)
GPCR signaling (cholera toxin)
GPCR signaling (pertussis toxin)
HGF signaling pathway
Integrin signaling pathway
JAK-STAT pathway and regulation pathway
NGF signaling pathway
PDGF signaling pathway
TGF-beta_super_family_signaling_pathway(canonical)
VEGF signaling pathway
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

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Statistics
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-- BioPAX Level2 instances --
control 105
catalysis 451
conversion 133
biochemicalReaction 469
complexAssembly 688
transport 124
physicalEntityParticipant 2479
sequenceParticipant 5104
pathway 332
pathwayStep 1670
complex 1621
dna 143
protein 2606
rna 60
smallMolecule 126

-- NODE --
Diagram 58
EventCompound 1694
Event 71
Process 1431
EventRelation 318
Protein 7676
MolecularComplexCompound 3121
MolecularComplex 44
DNACompound 160
DNA 402
ChemicalSubstance 341
RNA 90
Terminal 30

-- EDGE --
IN 2540
OUT 1933
Control 106
Catalyze 455
Connected 2377
PASSING 1301
HomologousEvent 187
MolecularVariation 182
Identical 11

======================
bug fix(BioPAX level2)
======================
1. relationshipXref instance changed to publicationXref
2. changed the use of XREF in control class. Instance of relationshipXref instead of unificationXref is used for INOH EventOntology reference.
3. Avoid instance sharing for physicalEntityParticipant

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known issues
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There are still some unexpected instance dupilcation/sharing.