BIOMD0000000420
type: SBMLModel
parameter: 777187
reaction: 777164
notes: This model is from the article: Asymmetric positive feedback loops reliably control biological responses Alexander V Ratushny, Ramsey A Saleem, Katherine Sitko, Stephen A Ramsey & John D Aitchison Mol Syst Biol. 2012 Apr 24;8:577. 22531117 , Abstract: Positive feedback is a common mechanism enabling biological systems to respond to stimuli in a switch-like manner. Such systems are often characterized by the requisite formation of a heterodimer where only one of the pair is subject to feedback. This ASymmetric Self-UpREgulation (ASSURE) motif is central to many biological systems, including cholesterol homeostasis (LXRα/RXRα), adipocyte differentiation (PPARγ/RXRα), development and differentiation (RAR/RXR), myogenesis (MyoD/E12) and cellular antiviral defense (IRF3/IRF7). To understand why this motif is so prevalent, we examined its properties in an evolutionarily conserved transcriptional regulatory network in yeast (Oaf1p/Pip2p). We demonstrate that the asymmetry in positive feedback confers a competitive advantage and allows the system to robustly increase its responsiveness while precisely tuning the response to a consistent level in the presence of varying stimuli. This study reveals evolutionary advantages for the ASSURE motif, and mechanisms for control, that are relevant to pharmacologic intervention and synthetic biology applications. To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information. In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not. To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, La…
parameter: 777188
parameter: 777176
parameter: 777184
species: 777160
substance units: 678703
reaction: 777167
volume units: 678655
created:
  W3 CDTF: Thu May 10 18:52:59 BST 2012
parameter: 777185
creator:
  ORG:
    orgname: Institute for Systems Biology (ISB) and Seattle BioMed
  n:
    given: Alexander
    family: Ratushny
is described by: http://identifiers.org/pubmed/22531117
is version of: GO:0006355
parameter: 777179
length unit: length
modified:
  W3 CDTF: Wed Jul 11 19:15:28 BST 2012
area units: area
rule: 777172
rule: 777174
parameter: 777182
occurs in: http://identifiers.org/taxonomy/4932
curated: true
is: MODEL1203010001
reaction: 777166
parameter: 777190
parameter: 777178
reaction: 777163
creator:
  ORG:
    orgname: EMBL-EBI
  n:
    given: Vijayalakshmi
    family: Chelliah
parameter: 777191
species: 777162
name: Ratushny2012_ASSURE_I
time units: 678679
compartment: 777159
parameter: 777181

777187
type: Parameter
constant: true
value: 40.0

777164
type: Reaction
kinetic law: 911624
reactant: 911612
fast: false
reversible: false

777168
type: LocalParameter
value: 0.1

911612
type: SpeciesReference
stoichiometry: 1.0
species: 777160

777160
type: Species
is version of: GO:0003675
is: SBO:0000252
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 10.0
in compartment: 777159

777159
type: Compartment
is version of: GO:0005623
is: SBO:0000290
constant: true
size: 1.0
spatial dimensions: 3.0

777188
type: Parameter
constant: true
value: 10.0

777176
type: Parameter
constant: true
value: 1.0E-5

777184
type: Parameter
constant: true
value: 2.0

777167
type: Reaction
kinetic law: 911672
reactant: 911660
fast: false
reversible: false

777170
type: LocalParameter
value: 0.1

911660
type: SpeciesReference
stoichiometry: 1.0
species: 777162

777162
type: Species
is: SBO:0000011
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 10.0
in compartment: 777159

777185
type: Parameter
constant: true
value: 0.1

777179
type: Parameter
constant: true
value: 40.0

777182
type: Parameter
constant: false
value: NaN

777166
type: Reaction
kinetic law: 911648
product: 911636
fast: false
reversible: false

911636
type: SpeciesReference
stoichiometry: 1.0
species: 777162

777190
type: Parameter
constant: true
value: 0.1

777178
type: Parameter
constant: true
value: 0.001

777163
type: Reaction
kinetic law: 911600
product: 911588
fast: false
reversible: false

911588
type: SpeciesReference
stoichiometry: 1.0
species: 777160

777191
type: Parameter
constant: true
value: 1000.0

777181
type: Parameter
constant: false
value: NaN