119230
is version of: GO:0043234
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 3.0
in compartment: 118862
name: complex
type: Species

196600
stoichiometry: 1.0
species: 119327
type: SpeciesReference

119665
constant: true
value: 0.6
type: Parameter

119619
kinetic law: 196636
product: 196624
product: 196612
reactant: 196600
notes: mass action rate law for first order forward, second order reverse, reversible reactions, two products, continuous scheme
fast: false
reversible: true
type: Reaction

196252
stoichiometry: 1.0
species: 119192
type: SpeciesReference

196192
stoichiometry: 1.0
species: 119057
type: SpeciesReference

119659
constant: true
value: 1.27
type: Parameter

196576
stoichiometry: 1.0
species: 119153
type: SpeciesReference

119551
notes: reversible simple convenience kinetics
modifier: 196492
fast: false
type: Reaction
reactant: 196456
kinetic law: 196504
product: 196480
product: 196468
reversible: true

118862
constant: true
size: 1.0
spatial dimensions: 3.0
name: Receiving cell
type: Compartment

119096
name: Complex_br_(Costal2/Fused/_br_Smoothened)
type: Species
initial amount: 0.0
notes: Long Name: Long Name: Long name not specified Synonym: Synonym not specified Accession: U05229 Heterodimer Member Info: Smoothened#PROTEIN#Smoothened#P00685#Smo#;Fused#PROTEIN#Fused#P00686#Fu#;Costal2#PROTEIN#Costal2#P00698#Cos-2|Cos2|Costal-2#
constant: false
boundary condition: false
is version of: GO:0043234
in compartment: 118881
has only substance units: false
initial concentration: NaN

BIOMD0000000395
reaction: 119551
species: 119230
species: 119076
species: 118940
parameter: 119674
creator:
  ORG:
    orgname: EMBL-EBI
  n:
    given: Vijayalakshmi
    family: Chelliah
reaction: 119575
occurs in: http://identifiers.org/taxonomy/40674
species: 119134
species: 118959
parameter: 119666
parameter: 119656
parameter: 119663
parameter: 119657
compartment: 118862
is version of: GO:0007224
species: 119173
species: 118998
creator:
  ORG:
    orgname: Rajiv Gandhi Centre for Biotechnology
  n:
    given: KC
    family: Sivakumar
name: Sivakumar2011_HedgehogSignalingPathway
parameter: 119676
parameter: 119677
parameter: 119665
reaction: 119481
parameter: 119672
length unit: length
species: 119289
parameter: 119673
type: SBMLModel
substance units: 142808
parameter: 119661
parameter: 119662
parameter: 119652
species: 119153
species: 119192
parameter: 119669
species: 119096
compartment: 118861
is described by: http://identifiers.org/pubmed/21978399
reaction: 119503
species: 119308
compartment: 118900
parameter: 119675
species: 119346
species: 119017
species: 118920
parameter: 119670
parameter: 119664
parameter: 119671
time units: 949038
parameter: 119658
parameter: 119659
reaction: 119458
reaction: 119527
area units: 498119
reaction: 119366
is: MODEL1101270001
species: 119114
volume units: 142784
species: 118978
species: 119036
species: 119211
reaction: 119389
species: 119250
species: 119057
parameter: 119651
notes: This model is from the article: A systems biology approach to model neural stem cell regulation by notch, shh, wnt, and EGF signaling pathways. Sivakumar KC, Dhanesh SB, Shobana S, James J, Mundayoor S. OMICS 2011 Oct;15(10):729-37. 21978399 , Abstract: The Notch, Sonic Hedgehog (Shh), Wnt, and EGF pathways have long been known to in fluence cell fate specification in the developing nervous system. Here we attempt ed to evaluate the contemporary knowledge about neural stem cell differentiation promoted by various drug-based regulations through a systems biology approach. Ou r model showed the phenomenon of DAPT-mediated antagonism of Enhancer of split [E (spl)] genes and enhancement of Shh target genes by a SAG agonist that were effec tively demonstrated computationally and were consistent with experimental studies . However, in the case of model simulation of Wnt and EGF pathways, the model net work did not supply any concurrent results with experimental data despite the fac t that drugs were added at the appropriate positions. This paves insight into the potential of crosstalks between pathways considered in our study. Therefore, we manually developed a map of signaling crosstalk, which included the species conne cted by representatives from Notch, Shh, Wnt, and EGF pathways and highlighted th e regulation of a single target gene, Hes-1, based on drug-induced simulations. T hese simulations provided results that matched with experimental studies. Therefo re, these signaling crosstalk models complement as a tool toward the discovery of novel regulatory processes involved in neural stem cell maintenance, proliferati on, and differentiation during mammalian central nervous system development. To o ur knowledge, this is the first report of a simple crosstalk map that highlights the differential regulation of neural stem cell differentiation and underscores t he flow of positive and negative regulatory signals modulated by drugs. Note: This is the current model for the…
parameter: 119667
parameter: 119668
reaction: 119433
curated: true
species: 119327
species: 119269
parameter: 119653
parameter: 119660
occurs in: CL:0000047
reaction: 119619
reaction: 119598
reaction: 119410
compartment: 118881

119664
constant: true
value: 0.46
type: Parameter

196528
stoichiometry: 1.0
species: 119114
type: SpeciesReference

118881
constant: true
size: 1.0
spatial dimensions: 3.0
name: lipid raft
type: Compartment

196072
stoichiometry: 1.0
species: 118978
type: SpeciesReference

119057
notes: Long Name: Long Name: Smoothened Synonym: Synonym not specified Accession: U05226 Heterodimer Member Info: Smoothened#PROTEIN#Smoothened#P00685#Smo#;Fused#PROTEIN#Fused#P00686#Fu#;Costal2#PROTEIN#Costal2#P00698#Cos-2|Cos2|Costal-2#
is version of: GO:0043234
type: Species
boundary condition: false
initial amount: 0.0
in compartment: 118862
constant: false
initial concentration: NaN
has only substance units: false
name: Complex_br_(Costal2/Fused/_br_Smoothened)

119389
kinetic law: 196120
product: 196108
reactant: 196096
fast: false
reversible: false
type: Reaction

119658
constant: true
value: 0.215
type: Parameter

196348
stoichiometry: 1.0
species: 119308
type: SpeciesReference

119663
constant: true
value: 1.23
type: Parameter

119076
is version of: GO:0043234
boundary condition: false
notes: Long Name: Long Name: Long name not specified Synonym: Synonym not specified Accession: U05228 Heterodimer Member Info: Smoothened#PROTEIN#Smoothened#P00685#Smo#;Fused#PROTEIN#Fused#P00686#Fu#;Costal2#PROTEIN#Costal2#P00698#Cos-2|Cos2|Costal-2#
name: Complex_br_(Costal2/Smoothened/_br_Fused)
constant: false
in compartment: 118862
initial concentration: NaN
has only substance units: false
type: Species
initial amount: 0.0

119289
is version of: GO:0043234
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 118900
name: Complex_br_(CBP/Cubitus)
type: Species

196540
stoichiometry: 1.0
species: 119289
type: SpeciesReference

119653
constant: true
value: 1.146
type: Parameter

119036
boundary condition: false
name: Complex_br_(Patched/Hedgehog)
type: Species
constant: false
initial concentration: NaN
is version of: GO:0043234
notes: Long Name: Long Name: Long name not specified Synonym: Synonym not specified Accession: U05221 Heterodimer Member Info: Hedgehog#PROTEIN#Hedgehog#P00688#Hh|Shh|Sonic hedgehog#;Patched#PROTEIN#Patched#P00689#Ptc|Ptc1#
initial amount: 0.0
has only substance units: false
in compartment: 118862

196468
stoichiometry: 1.0
species: 119134
type: SpeciesReference

196180
stoichiometry: 1.0
species: 119096
type: SpeciesReference

196240
stoichiometry: 1.0
species: 119173
type: SpeciesReference

196612
stoichiometry: 1.0
species: 119346
type: SpeciesReference

119662
constant: true
value: 0.61
type: Parameter

119652
constant: true
value: 1.122
type: Parameter

196516
stoichiometry: 1.0
species: 119153
type: SpeciesReference

119327
is version of: GO:0043234
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 118881
name: Complex_br_(Su(fu)/Fused/../_br_Smoothened)
type: Species

119598
kinetic law: 196588
product: 196576
reactant: 196564
notes: mass action rate law for first order forward, first order reverse, reversible reactions, continuous scheme
fast: false
reversible: true
type: Reaction

196480
stoichiometry: 1.0
species: 119327
type: SpeciesReference

196384
stoichiometry: 1.0
species: 119057
type: SpeciesReference

196060
stoichiometry: 1.0
species: 119192
type: SpeciesReference

196420
stoichiometry: 1.0
species: 118940
type: SpeciesReference

119017
boundary condition: false
constant: false
notes: Long Name: Hedgehog Synonym: Hh,Shh,Sonic hedgehog Accession: P00688
name: Hedgehog
type: Species
has only substance units: false
initial concentration: NaN
initial amount: 5.0
in compartment: 118861
is version of: Q15465

196408
stoichiometry: 1.0
species: 119076
type: SpeciesReference

119308
is version of: GO:0043234
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 118881
name: Complex_br_(Costal2/Fused/../microtubule)
type: Species

196288
stoichiometry: 1.0
species: 119153
type: SpeciesReference

119661
constant: true
value: 1.33
type: Parameter

196156
stoichiometry: 1.0
species: 119036
type: SpeciesReference

119433
kinetic law: 196216
modifier: 196204
product: 196192
reactant: 196180
notes: kinetics of non-modulated unireactant enzymes
fast: false
reversible: true
type: Reaction

196336
stoichiometry: 1.0
species: 119230
type: SpeciesReference

119211
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 3.0
in compartment: 118862
name: smoothened
type: Species

119346
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 118862
name: Complex_br_(Su(fu)/Cubitus)
type: Species

119651
constant: true
value: 1.13
type: Parameter

118861
constant: true
size: 1.0
spatial dimensions: 3.0
type: Compartment

119527
notes: reversible rapid-equilibrium random order ternary-complex mechanism with two products
reactant: 196384
product: 196408
fast: false
reversible: true
type: Reaction
product: 196420
modifier: 196432
kinetic law: 196444
reactant: 196396

196324
stoichiometry: 1.0
species: 119211
type: SpeciesReference

118900
constant: true
size: 1.0
spatial dimensions: 3.0
name: nucleus
type: Compartment

119669
constant: true
value: 1.62
type: Parameter

196228
stoichiometry: 1.0
species: 118998
type: SpeciesReference

119481
kinetic law: 196312
modifier: 196300
product: 196288
reactant: 196276
notes: kinetics of non-modulated unireactant enzymes
fast: false
reversible: true
type: Reaction

119671
constant: true
value: 0.71
type: Parameter

196144
stoichiometry: 1.0
species: 118959
type: SpeciesReference

119575
kinetic law: 196552
product: 196540
reactant: 196528
reactant: 196516
notes: mass action rate law for second order forward, first order reverse, reversible reactions, two reactants, continuous scheme
fast: false
reversible: true
type: Reaction

119153
constant: false
initial amount: 0.0
has only substance units: false
notes: Long Name: Cubitus interruptus Synonym: Ci,CiFL,Gli1,Gli2,Gli3 Accession: P00690
type: Species
name: Cubitus_space_interruptus
boundary condition: false
in compartment: 118900
initial concentration: NaN
is homolog to: B4NUI3

119676
constant: true
value: 1.0
type: Parameter

118940
initial concentration: NaN
initial amount: 0.0
is version of: CHEBI:16761
notes: Long Name: ADP Synonym: Synonym not specified Accession: S01693
type: Species
has only substance units: false
constant: false
boundary condition: false
in compartment: 118862
name: ADP

196276
stoichiometry: 1.0
species: 119153
type: SpeciesReference

196624
stoichiometry: 1.0
species: 119096
type: SpeciesReference

119366
kinetic law: 196084
product: 196072
reactant: 196060
fast: false
reversible: false
type: Reaction

119173
type: Species
initial concentration: NaN
initial amount: 2.5
is version of: GO:0043234
in compartment: 118900
has only substance units: false
name: Complex_br_(Cubitus_space_interruptus_space_repressor/Su(fu))
constant: false
boundary condition: false
notes: Long Name: Long Name: Long name not specified Synonym: Synonym not specified Accession: U05220 Heterodimer Member Info: Cubitus interruptus repressor#PROTEIN#Cubitus interruptus repressor#P00687#CiR#;Su(fu)#PROTEIN#Su(fu)#P00699#Suppressor of Fused#

119458
kinetic law: 196264
product: 196252
reactant: 196240
reactant: 196228
notes: mass action rate law for second order forward, first order reverse, reversible reactions, two reactants, continuous scheme
fast: false
reversible: true
type: Reaction

119114
in compartment: 118900
is version of: Q92793
constant: false
type: Species
notes: Long Name: CBP Synonym: CREB binding protein,p300 Accession: P00691
initial concentration: NaN
boundary condition: false
name: CBP
has only substance units: false
initial amount: 2.0

119668
constant: true
value: 0.79
type: Parameter

119672
constant: true
value: 1.56
type: Parameter

119677
constant: true
value: 1.0
type: Parameter

196096
stoichiometry: 1.0
species: 119289
type: SpeciesReference

196396
stoichiometry: 1.0
species: 118920
type: SpeciesReference

118920
constant: false
is version of: CHEBI:15422
notes: Long Name: ATP Synonym: Synonym not specified Accession: S01691
initial concentration: NaN
type: Species
initial amount: 2.0
in compartment: 118862
name: ATP
has only substance units: false
boundary condition: false

196456
stoichiometry: 1.0
species: 119308
type: SpeciesReference

119410
kinetic law: 196168
product: 196156
reactant: 196144
reactant: 196132
notes: mass action rate law for second order forward, first order reverse, reversible reactions, two reactants, continuous scheme
fast: false
reversible: true
type: Reaction

119134
type: Species
initial concentration: NaN
has only substance units: false
name: Microtubule
boundary condition: false
is: GO:0005874
notes: Long Name: Microtubule Synonym: Synonym not specified Accession: P00696
initial amount: 0.0
in compartment: 118862
constant: false

118959
boundary condition: false
notes: Long Name: Patched Synonym: Ptc,Ptc1 Accession: P00689
name: Patched
is version of: Q13635
initial concentration: NaN
type: Species
in compartment: 118862
initial amount: 5.0
has only substance units: false
constant: false

119667
constant: true
value: 1.29
type: Parameter

196564
stoichiometry: 1.0
species: 119346
type: SpeciesReference

119673
constant: true
value: 1.53
type: Parameter

196108
stoichiometry: 1.0
species: 118978
type: SpeciesReference

196132
stoichiometry: 1.0
species: 119017
type: SpeciesReference

119657
constant: true
value: 1.75
type: Parameter

118978
type: Species
initial concentration: NaN
is described by: GO:0007228
name: Hedgehog target gene
constant: false
has only substance units: false
initial amount: 0.0
boundary condition: false
notes: Long Name: e.g., ptc Synonym: Synonym not specified Accession: G01526
in compartment: 118900

119660
constant: true
value: 0.73
type: Parameter

119666
constant: true
value: 1.67
type: Parameter

119656
constant: true
value: 1.03
type: Parameter

119670
constant: true
value: 1.28
type: Parameter

119674
constant: true
value: 0.89
type: Parameter

119503
type: Reaction
kinetic law: 196372
product: 196348
reversible: false
notes: mass action rate law for second order irreversible reactions, two reactants, continuous scheme
reactant: 196324
reactant: 196336
fast: false
modifier: 196360

119250
is version of: GO:0005874
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 118862
name: MIcrotubule
type: Species

119269
is version of: P10523
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.5
in compartment: 118862
name: sag
type: Species

119192
has only substance units: false
initial amount: 0.0
boundary condition: false
initial concentration: NaN
notes: Long Name: Long Name: Long name not specified Synonym: Synonym not specified Accession: U05217 Heterodimer Member Info: Cubitus interruptus repressor#PROTEIN#Cubitus interruptus repressor#P00687#CiR#;Sap18#PROTEIN#Sap18#P00697#Sin3-associated polypeptide 18#;Su(fu)#PROTEIN#Su(fu)#P00699#Suppressor of Fused#
type: Species
in compartment: 118900
is version of: GO:0043234
name: Complex_br_(Sap18/Su(fu)/_br_Cubitus_space_interruptus_space_repressor)
constant: false

119675
constant: true
value: 1.0
type: Parameter

118998
has only substance units: false
in compartment: 118900
initial amount: 2.5
notes: Long Name: Sap18 Synonym: Sin3-associated polypeptide 18 Accession: P00697
boundary condition: false
type: Species
name: Sap18
constant: false
initial concentration: NaN
is homolog to: Q3MHS8

W3 CDTF: Fri Apr 20 20:39:57 BST 2012

W3 CDTF: Wed Nov 02 14:45:21 GMT 2011