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Items: 1 to 20 of 27

1.

Prebiotic network evolution: six key parameters.

Nghe P, Hordijk W, Kauffman SA, Walker SI, Schmidt FJ, Kemble H, Yeates JA, Lehman N.

Mol Biosyst. 2015 Dec;11(12):3206-17. doi: 10.1039/c5mb00593k. Review.

PMID:
26490759
2.

Beyond Descartes and Newton: Recovering life and humanity.

Kauffman SA, Gare A.

Prog Biophys Mol Biol. 2015 Dec;119(3):219-44. doi: 10.1016/j.pbiomolbio.2015.06.003. Epub 2015 Jul 2. Review.

PMID:
26143598
3.

Prolegomenon to patterns in evolution.

Kauffman SA.

Biosystems. 2014 Sep;123:3-8. doi: 10.1016/j.biosystems.2014.03.004. Epub 2014 Apr 3.

PMID:
24704211
4.

Gene-pair expression signatures reveal lineage control.

Heinäniemi M, Nykter M, Kramer R, Wienecke-Baldacchino A, Sinkkonen L, Zhou JX, Kreisberg R, Kauffman SA, Huang S, Shmulevich I.

Nat Methods. 2013 Jun;10(6):577-83. doi: 10.1038/nmeth.2445. Epub 2013 Apr 21.

5.

Searching the clinical fitness landscape.

Eppstein MJ, Horbar JD, Buzas JS, Kauffman SA.

PLoS One. 2012;7(11):e49901. doi: 10.1371/journal.pone.0049901. Epub 2012 Nov 14.

6.

A stochastic model of autocatalytic reaction networks.

Filisetti A, Graudenzi A, Serra R, Villani M, Füchslin RM, Packard N, Kauffman SA, Poli I.

Theory Biosci. 2012 Jun;131(2):85-93. doi: 10.1007/s12064-011-0136-x. Epub 2011 Oct 7.

PMID:
21979857
7.

Required levels of catalysis for emergence of autocatalytic sets in models of chemical reaction systems.

Hordijk W, Kauffman SA, Steel M.

Int J Mol Sci. 2011;12(5):3085-101. doi: 10.3390/ijms12053085. Epub 2011 May 12.

8.

Proceedings from the Montebello Round Table Discussion. Second annual conference on Complexity and Variability discusses research that brings innovation to the bedside.

Seely AJ, Kauffman SA, Bates JH, Macklem PT, Suki B, Marshall JC, Batchinsky AI, Perez-Velazquez JL, Seiver A, McGregor C, Maksym G, Kamath MV, Similowski T, Buchman TG, Letellier C, Filoche M, Frasch MG, Straus C, Glass L, Godin PJ, Morris JA, Sow D, Nenadovic V, Arnold RC, Norris P, Moorman JR.

J Crit Care. 2011 Jun;26(3):325-7. doi: 10.1016/j.jcrc.2011.04.002. No abstract available.

PMID:
21616298
9.

Dynamical properties of a boolean model of gene regulatory network with memory.

Graudenzi A, Serra R, Villani M, Damiani C, Colacci A, Kauffman SA.

J Comput Biol. 2011 Oct;18(10):1291-303. doi: 10.1089/cmb.2010.0069. Epub 2011 Jan 7.

PMID:
21214342
10.

Approaches to the origin of life on Earth.

Kauffman SA.

Life (Basel). 2011 Nov 18;1(1):34-48. doi: 10.3390/life1010034.

11.

Protein folding absent selection.

Labean TH, Butt TR, Kauffman SA, Schultes EA.

Genes (Basel). 2011 Aug 16;2(3):608-26. doi: 10.3390/genes2030608.

12.

A model of sequential branching in hierarchical cell fate determination.

Foster DV, Foster JG, Huang S, Kauffman SA.

J Theor Biol. 2009 Oct 21;260(4):589-97. doi: 10.1016/j.jtbi.2009.07.005. Epub 2009 Jul 15.

PMID:
19615382
13.

Using cell fate attractors to uncover transcriptional regulation of HL60 neutrophil differentiation.

Huang AC, Hu L, Kauffman SA, Zhang W, Shmulevich I.

BMC Syst Biol. 2009 Feb 18;3:20. doi: 10.1186/1752-0509-3-20.

14.

Maximum power efficiency and criticality in random Boolean networks.

Carteret HA, Rose KJ, Kauffman SA.

Phys Rev Lett. 2008 Nov 21;101(21):218702. Epub 2008 Nov 20.

PMID:
19113460
15.

Evolution of complex dynamics.

Wilds R, Kauffman SA, Glass L.

Chaos. 2008 Sep;18(3):033109. doi: 10.1063/1.2962223.

PMID:
19045447
16.

Critical networks exhibit maximal information diversity in structure-dynamics relationships.

Nykter M, Price ND, Larjo A, Aho T, Kauffman SA, Yli-Harja O, Shmulevich I.

Phys Rev Lett. 2008 Feb 8;100(5):058702. Epub 2008 Feb 4.

PMID:
18352443
17.

Mutual information in random Boolean models of regulatory networks.

Ribeiro AS, Kauffman SA, Lloyd-Price J, Samuelsson B, Socolar JE.

Phys Rev E Stat Nonlin Soft Matter Phys. 2008 Jan;77(1 Pt 1):011901. Epub 2008 Jan 3.

PMID:
18351870
18.

Gene expression dynamics in the macrophage exhibit criticality.

Nykter M, Price ND, Aldana M, Ramsey SA, Kauffman SA, Hood LE, Yli-Harja O, Shmulevich I.

Proc Natl Acad Sci U S A. 2008 Feb 12;105(6):1897-900. doi: 10.1073/pnas.0711525105. Epub 2008 Feb 4.

19.

Towards a physics of evolution: critical diversity dynamics at the edges of collapse and bursts of diversification.

Hanel R, Kauffman SA, Thurner S.

Phys Rev E Stat Nonlin Soft Matter Phys. 2007 Sep;76(3 Pt 2):036110. Epub 2007 Sep 14.

PMID:
17930309
20.

Noisy attractors and ergodic sets in models of gene regulatory networks.

Ribeiro AS, Kauffman SA.

J Theor Biol. 2007 Aug 21;247(4):743-55. Epub 2007 Apr 27.

PMID:
17543998

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