963807
constant: false
value: 0.0
name: ORI
type: Parameter

963825
constant: true
value: 6.0
name: ki_sbf_
type: Parameter

963798
constant: false
value: NaN
name: Vi_t1
type: Parameter

963811
constant: true
value: 0.4
name: epsilonori_b2
type: Parameter

963788
constant: true
value: 0.1
name: ki_20
type: Parameter

963737
constant: true
value: 0.1
name: kd_n2
type: Parameter

963757
constant: false
value: NaN
name: Vd_b5
type: Parameter

963768
constant: true
value: 0.1
name: ks_c1_
type: Parameter

963697
constant: true
units: litre
size: 1.0
spatial dimensions: 3.0
type: Compartment

963738
constant: false
value: 0.2342
name: Clb2_T
type: Parameter

963831
constant: true
value: 0.5
name: epsilonsbf_b5
type: Parameter

963826
constant: false
value: NaN
name: Va_sbf
type: Parameter

963827
constant: true
value: 0.01
name: Ji_sbf
type: Parameter

219694
unit: 219706
name: minute
type: SBMLUnitsDef

963845
constant: true
value: 0.1
name: Ja_swi
type: Parameter

963749
constant: false
value: NaN
name: Clb5
type: Parameter

963824
constant: true
value: 0.5
name: ki_sbf
type: Parameter

963740
constant: true
value: 0.002
name: ks_b2
type: Parameter

963808
constant: true
value: 2.0
name: ks_ori
type: Parameter

963770
constant: true
value: 50.0
name: kas_b2
type: Parameter

963787
constant: true
value: 1.0
name: ka_20
type: Parameter

ORG:
  orgname: University of Auckland
n:
  given: Catherine
  family: Lloyd

219766
unit: 219778
name: first_order_rate_constant
type: SBMLUnitsDef

963750
constant: false
value: NaN
name: Sic1
type: Parameter

963758
constant: false
value: NaN
name: Bck2
type: Parameter

963780
constant: true
value: 1.0
name: epsilonc1_b5
type: Parameter

963739
constant: true
value: 1.0
name: Hct1_T
type: Parameter

963767
constant: true
value: 0.02
name: ks_c1
type: Parameter

963830
constant: true
value: 75.0
name: epsilonsbf_n3
type: Parameter

963790
constant: false
value: NaN
name: Vi_20
type: Parameter

963828
constant: true
value: 0.01
name: Ja_sbf
type: Parameter

963777
constant: true
value: 20.0
name: epsilonc1_n3
type: Parameter

963748
constant: false
value: NaN
name: Clb2
type: Parameter

963844
constant: true
value: 0.1
name: Ji_swi
type: Parameter

963771
constant: true
value: 0.05
name: kdi_b2
type: Parameter

963809
constant: true
value: 0.06
name: kd_ori
type: Parameter

W3 CDTF: Fri Jun 25 13:06:06 BST 2010

963819
constant: true
value: 0.06
name: kd_spn
type: Parameter

963751
constant: false
value: 0.0614
name: Clb5_T
type: Parameter

963786
constant: false
value: 0.6848
name: Cdc20
type: Parameter

963813
constant: true
value: 0.3
name: ks_bud
type: Parameter

963839
constant: false
value: NaN
name: Swi5
type: Parameter

MODEL1006230004
parameter: 963789
rule: 963730
rule: 963720
parameter: 963777
parameter: 963845
time units: 219790
parameter: 963843
parameter: 963771
parameter: 963781
area units: area
parameter: 963738
parameter: 963818
parameter: 963828
parameter: 963756
parameter: 963744
rule: 963726
parameter: 963820
parameter: 963830
parameter: 963788
parameter: 963798
parameter: 963792
is described by: http://identifiers.org/pubmed/10637314
parameter: 963780
parameter: 963790
parameter: 963805
parameter: 963815
parameter: 963749
parameter: 963757
parameter: 963837
parameter: 963825
parameter: 963775
parameter: 963773
units def: 219694
rule: 963719
parameter: 963795
parameter: 963734
parameter: 963822
parameter: 963812
parameter: 963752
parameter: 963740
parameter: 963750
parameter: 963840
rule: 963714
rule: 963713
rule: 963704
curated: false
substance units: 178797
parameter: 963772
parameter: 963782
notes: This a model from the article: Kinetic analysis of a molecular model of the budding yeast cell cycle. Chen KC, Csikasz-Nagy A, Gyorffy B, Val J, Novak B, Tyson JJ. Mol Biol Cell 2000 Jan;11(1):369-91 10637314 , Abstract: The molecular machinery of cell cycle control is known in more detail for budding yeast, Saccharomyces cerevisiae, than for any other eukaryotic organism. In recent years, many elegant experiments on budding yeast have dissected the roles of cyclin molecules (Cln1-3 and Clb1-6) in coordinating the events of DNA synthesis, bud emergence, spindle formation, nuclear division, and cell separation. These experimental clues suggest a mechanism for the principal molecular interactions controlling cyclin synthesis and degradation. Using standard techniques of biochemical kinetics, we convert the mechanism into a set of differential equations, which describe the time courses of three major classes of cyclin-dependent kinase activities. Model in hand, we examine the molecular events controlling "Start" (the commitment step to a new round of chromosome replication, bud formation, and mitosis) and "Finish" (the transition from metaphase to anaphase, when sister chromatids are pulled apart and the bud separates from the mother cell) in wild-type cells and 50 mutants. The model accounts for many details of the physiology, biochemistry, and genetics of cell cycle control in budding yeast. This model was taken from the CellML repository and automatically converted to SBML. The original model was: Chen KC, Csikasz-Nagy A, Gyorffy B, Val J, Novak B, Tyson JJ. (2000) - version=1.0 The original CellML model was created by: Catherine Lloyd c.lloyd@auckland.ac.nz The University of Auckland This model originates from BioModels Database: A Database of Annotated Published Models (http://www.ebi.ac.uk/biomodels/). It is copyright (c) 2005-2011 The BioModels.net Team. To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have…
units def: 219657
type: SBMLModel
rule: 963717
parameter: 963739
parameter: 963737
parameter: 963839
parameter: 963767
parameter: 963755
parameter: 963765
parameter: 963833
rule: 963725
parameter: 963821
parameter: 963831
parameter: 963799
rule: 963728
rule: 963711
rule: 963706
parameter: 963806
parameter: 963816
rule: 963707
parameter: 963814
parameter: 963742
parameter: 963748
parameter: 963758
parameter: 963838
parameter: 963848
parameter: 963846
parameter: 963836
parameter: 963776
parameter: 963786

963833
constant: false
value: NaN
name: Mcm1
type: Parameter

963759
constant: true
value: 0.0027
name: Bck2_0
type: Parameter

963745
constant: true
value: 0.05
name: kd_b2__
type: Parameter

ORG:
  orgname: University of Auckland
n:
  given: Catherine
  family: Lloyd

219706
exponent: 1.0
scale: 0
multipler: 60.0
kind: SECOND
type: SBMLUnit

963843
constant: true
value: 0.2
name: ki_swi_
type: Parameter

219754
exponent: -1.0
scale: 0
multipler: 60.0
kind: SECOND
type: SBMLUnit

963752
constant: true
value: 0.006
name: ks_b5
type: Parameter

963799
constant: true
value: 0.05
name: Ji_t1
type: Parameter

963772
constant: false
value: 0.0207
name: Clb5_Sic1
type: Parameter

963822
constant: true
value: 1.0
name: ka_sbf
type: Parameter

219681
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

963812
constant: false
value: 0.0
name: BUD
type: Parameter

963832
constant: false
value: NaN
name: MBF
type: Parameter

963765
constant: false
value: 0.1231
name: Sic1_T
type: Parameter

219669
exponent: 1.0
scale: -9
multipler: 1.0
kind: MOLE
type: SBMLUnit

963746
constant: false
value: NaN
name: Vd_b2
type: Parameter

963792
constant: false
value: 0.9946
name: Hct1
type: Parameter

963842
constant: true
value: 0.3
name: ki_swi
type: Parameter

963779
constant: true
value: 2.0
name: epsilonc1_k2
type: Parameter

963743
constant: true
value: 0.01
name: kd_b2
type: Parameter

963821
constant: false
value: NaN
name: SBF
type: Parameter

219657
unit: 219681
unit: 219669
name: nanomolar
type: SBMLUnitsDef

963753
constant: true
value: 0.02
name: ks_b5_
type: Parameter

219730
exponent: 1.0
scale: -9
multipler: 1.0
kind: MOLE
type: SBMLUnit

963793
constant: true
value: 0.04
name: ka_t1
type: Parameter

963774
constant: true
value: 0.05
name: kdi_b5
type: Parameter

963800
constant: true
value: 0.05
name: Ja_t1
type: Parameter

963802
constant: true
value: 0.5
name: epsiloni_t1_b5
type: Parameter

963764
constant: true
value: 0.02
name: Cln3_max
type: Parameter

963783
constant: true
value: 0.005
name: ks_20
type: Parameter

963840
constant: true
value: 1.0
name: ka_swi
type: Parameter

963734
constant: false
value: 0.0078
name: Cln2
type: Parameter

963744
constant: true
value: 2.0
name: kd_b2_
type: Parameter

963818
constant: true
value: 0.08
name: ks_spn
type: Parameter

219718
unit: 219754
unit: 219742
unit: 219730
name: flux
type: SBMLUnitsDef

963820
constant: true
value: 0.2
name: J_spn
type: Parameter

963804
constant: true
value: 1.0
name: epsiloni_t1_b2
type: Parameter

963849
constant: true
value: 0.05
name: Jd2_c1
type: Parameter

963794
constant: true
value: 2.0
name: ka_t1_
type: Parameter

963801
constant: true
value: 1.0
name: epsiloni_t1_n2
type: Parameter

963784
constant: true
value: 0.06
name: ks_20_
type: Parameter

963773
constant: true
value: 50.0
name: kas_b5
type: Parameter

963834
constant: true
value: 1.0
name: ka_mcm
type: Parameter

963763
constant: true
value: 1.0
name: Dn3
type: Parameter

963838
constant: true
value: 1.0
name: Ja_mcm
type: Parameter

963815
constant: true
value: 1.0
name: epsilonbud_b5
type: Parameter

219790
unit: 219802
name: time
type: SBMLUnitsDef

963735
constant: true
value: 0.0
name: ks_n2
type: Parameter

W3 CDTF: Fri Jun 25 13:06:06 BST 2010

963755
constant: true
value: 0.1
name: kd_b5
type: Parameter

963805
constant: false
value: 0.6608
name: mass
type: Parameter

963848
constant: true
value: 0.08
name: kd_20
type: Parameter

963795
constant: true
value: 0.0
name: ki_t1
type: Parameter

963776
constant: true
value: 0.3
name: kd2_c1
type: Parameter

963762
constant: true
value: 6.0
name: Jn3
type: Parameter

ORG:
  orgname: University of Auckland
n:
  given: Catherine
  family: Lloyd

219742
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

963781
constant: true
value: 0.067
name: epsilonc1_b2
type: Parameter

963814
constant: true
value: 0.06
name: kd_bud
type: Parameter

963837
constant: true
value: 1.0
name: Ji_mcm
type: Parameter

963816
constant: false
value: 0.0
name: SPN
type: Parameter

963789
constant: true
value: 10.0
name: ki_20_
type: Parameter

963742
constant: true
value: 0.05
name: ks_b2_
type: Parameter

W3 CDTF: Fri Jun 25 13:06:06 BST 2010

963736
constant: true
value: 0.05
name: ks_n2_
type: Parameter

963769
constant: false
value: 0.079
name: Clb2_Sic1
type: Parameter

963756
constant: true
value: 0.25
name: kd_b5_
type: Parameter

963806
constant: true
value: 0.005776
name: mu
type: Parameter

219802
exponent: 1.0
scale: 0
multipler: 60.0
kind: SECOND
type: SBMLUnit

963761
constant: false
value: NaN
name: Cln3
type: Parameter

963846
constant: true
value: 0.01
name: kd1_c1
type: Parameter

963775
constant: false
value: NaN
name: Vd2_c1
type: Parameter

963836
constant: true
value: 0.15
name: ki_mcm
type: Parameter

963782
constant: false
value: 0.8332
name: Cdc20_T
type: Parameter

219778
exponent: -1.0
scale: 0
multipler: 60.0
kind: SECOND
type: SBMLUnit

963796
constant: true
value: 0.64
name: ki_t1_
type: Parameter

W3 CDTF: Fri Jun 25 13:06:06 BST 2010