Biology Reference
In-Depth Information
55. Weeding E, Houle J, Kaznessis Y. SynBioSS designer: a web-based tool for the automated generation of kinetic
models for synthetic biological constructs.
Brief Bioinform
. 2010;11(4):394
402.
56. Funahashi A, Morohashi M, Kitano H. CellDesigner: a process diagram editor for gene-regulatory and
biochemical networks.
BIOSILICO
. 2003;1:159
162.
57. Rodrigo G, Carrera J, Jaramillo A. Genetdes: automatic design of transcriptional networks.
Bioinformatics
.
2007;23(14):1857
1858.
58. Hoops S, Sahle S, Gauges R, et al. COPASI
—
a complex pathway simulator.
Bioinformatics
. 2006;22
3074.
59. Chandran D, Bergmann FT, Sauro HM. Tinkercell: modular CAD tool for synthetic biology.
J Biol Eng
.
2009;3:19.
60. Marchisio M, Stelling J. Computational design of synthetic gene circuits with composable parts.
Bioinformatics
.
2008;24(17):1903
(24):3067
1910.
61. Kurata H, Masaki K, Sumida Y, Iwasaki R. CADLIVE dynamic simulator: direct link of biochemical networks to
dynamic models.
Genome Res
. 2005;15:590
600.
62. Canton B, Labno A, Endy D. Refinement and standardization of synthetic biological parts and devices.
Nat
Biotechnol
. 2008;26(7):787
793.
63. Shetty RP, Endy D, Knight Jr TF. Engineering biobrick vectors from biobrick parts.
J Biol Eng
. 2008;2:5.
64. Raser JM, O
'
Shea EK. Noise in gene expression: origins, consequences, and control.
Science
. 2005;309
(5743):2010
2013.
65. Elowitz M, Levine A, Siggia E, Swain P. Stochastic gene expression in a single cell.
Science
. 2002;297
(5584):1183.
66. Kaern M, Elston T, Blake W, Collins J. Stochasticity in gene expression.
Nat Rev Genet
. 2005;6:451
464.
67. Salis H, Kaznessis Y. Accurate hybrid stochastic simulation of a system of coupled chemical or biochemical
reactions.
J Chem Phys
. 2005;122:054103.
68. Kaznessis Y. SynBioSS-aided design of synthetic biological constructs.
Methods Enzymol
. 2011;498:137.
139