Biology Reference
In-Depth Information
at a symposium that was held at the Vrije Universiteit (the Netherlands, Ams-
terdam) from June 2-5 in 2005. The chapters in this topic are the result of the
symposium and contain the adjustments the authors made as a result of those
discussions.
REFERENCES
Alberghina L & Westerhoff HV (Eds.)
Systems Biology: Definitions and Perspectives
(Topics in
Current Genetics), Springer-Verlag Berlin and Heidelberg GmbH & Co, 2005.
Bakker BM, Assmus HE, Bruggeman FJ, Haanstra FJ, Klipp E & Westerhoff HV.
Network-based
selectivity of antiparasitic inhibitors
. Molecular Biology Reports: 29, 1-5, 2002.
Bakker BM, Mensonides FIC, Teusink B, van Hoek P, Michels PAM & Westerhoff HV.
Compartmentation protects trypanosomes from the dangerous design of glycolysis
. Proceed-
ings of the National Acadamy of Sciences USA: 97(5), 2087-2092, 2000.
Bakker BM, Michels PAM, Opperdoes FR & Westerhoff HV.
Glycolysis in bloodstream form
Trypanosoma brucei
can be understood in terms of the kinetics of the glycolytic enzymes
.
Journal of Biological Chemistry: 272(6), 3207-3215, 1997.
Bechtel W & Richardson RC.
Discovering complexity. Decomposition and localization as strate-
gies in scientific research
. Princeton University Press, Princeton, New Jersey, 1993.
Bock GR & Goode JA (Eds.)
The Limits of Reductionism in Biology
. (Novartis Foundation
Symposium 213, John Wiley, London, 1998.
Boogerd FC, Bruggeman FJ, Richardson RC, Stephan A & Westerhoff HV.
Emergence and its
place in nature: A case study of biochemical networks.
Synthese: 145, 131-164, 2005.
Bruggeman FJ, Bakker BM, Hornberg JJ &Westerhoff HV.
Introduction to Computational Models
of Biochemical Reaction Networks
. In: Computational Systems Biology, Kriete A & Eils R
(Eds.), Chapter 7, Elsevier Academic Press, Burlington, MA, 2006.
Bruggeman FJ, Boogerd FC & Westerhoff HV.
The multifarious short-term regulation of ammo-
nium assimilation of
Escherichia coli
: dissection using an in silico replica
. FEBS Journal: 272,
1965-1985, 2005.
Bruggeman FJ, Westerhoff HV & Boogerd FC.
BioComplexity: a pluralist research strategy is
necessary for a mechanistic explanation of the “live” state
. Philosophical Psychology: 15(4),
411-440, 2002.
Callebaut W.
Again, what the philosophy of biology is not
. Acta Biotheoretica: 53, 93-122, 2005.
Carnap R.
Philosophical Foundations of Physics
, Basic topics, New York, 1966.
Chong L & Ray LB. Whole-istic Biology. Science: 295(5560), 1661, 2002.
Craver CF.
Role Functions, Mechanisms and Hierarchy
. Philosophy of Science: 68, 31-55, 2001.
Craver CF.
Interlevel Experiments, Multilevel Mechanisms in the Neuroscience of Memory
. Phi-
losophy of Science: 69 (
Supplement
), S83-S97, 2002.
Crick FHC.
Of molecules and man
. Washington University Press, Seattle, WA, 1966.
Darden L & Tabery J.
Molecular Biology
. The Stanford Encyclopedia of Philosophy (Spring 2005
Edition), Zalta EN (ed.), URL=http://plato.stanford.edu/archives/spr2005/ entries/molecular-
biology.
Duve de C.
Blueprint for a Cell: The Nature and Origin of Life
. Neil Patterson Publishers, Carolina
Biological Supply Company, Burlington, 1991.
Gallagher R & Appenzeller T.
Beyond reductionism
. Science: 284(5411), 79, 1999.
Hempel CG & Oppenheim P.
Studies in the Logic of Explanation
. Philosophy of Science:
15, 135-175, 1948.
