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Results: 1 to 20 of 40

1.

Model reduction for stochastic CaMKII reaction kinetics in synapses by graph-constrained correlation dynamics.

Johnson T, Bartol T, Sejnowski T, Mjolsness E.

Phys Biol. 2015 Jun 18;12(4):045005. doi: 10.1088/1478-3975/12/4/045005.

PMID:
26086598
2.

Analysis of cell division patterns in the Arabidopsis shoot apical meristem.

Shapiro BE, Tobin C, Mjolsness E, Meyerowitz EM.

Proc Natl Acad Sci U S A. 2015 Apr 14;112(15):4815-20. doi: 10.1073/pnas.1502588112. Epub 2015 Mar 30.

PMID:
25825722
3.

Model of structuring the stem cell niche in shoot apical meristem of Arabidopsis thaliana.

Nikolaev SV, Zubairova US, Penenko AV, Mjolsness ED, Shapiro BE, Kolchanov NA.

Dokl Biol Sci. 2013 Sep;452:316-9. doi: 10.1134/S0012496613050104. Epub 2013 Oct 23. No abstract available.

PMID:
24150656
4.

Using cellzilla for plant growth simulations at the cellular level.

Shapiro BE, Meyerowitz EM, Mjolsness E.

Front Plant Sci. 2013 Oct 16;4:408. doi: 10.3389/fpls.2013.00408. eCollection 2013.

5.

Time-ordered product expansions for computational stochastic system biology.

Mjolsness E.

Phys Biol. 2013 Jun;10(3):035009. doi: 10.1088/1478-3975/10/3/035009. Epub 2013 Jun 4.

6.

Mathematics of small stochastic reaction networks: a boundary layer theory for eigenstate analysis.

Mjolsness E, Prasad U.

J Chem Phys. 2013 Mar 14;138(10):104111. doi: 10.1063/1.4794128.

7.

A hierarchical exact accelerated stochastic simulation algorithm.

Orendorff D, Mjolsness E.

J Chem Phys. 2012 Dec 7;137(21):214104. doi: 10.1063/1.4766353.

8.

Combined in silico/in vivo analysis of mechanisms providing for root apical meristem self-organization and maintenance.

Mironova VV, Omelyanchuk NA, Novoselova ES, Doroshkov AV, Kazantsev FV, Kochetov AV, Kolchanov NA, Mjolsness E, Likhoshvai VA.

Ann Bot. 2012 Jul;110(2):349-60. doi: 10.1093/aob/mcs069. Epub 2012 Apr 16.

9.

Computational analysis of live cell images of the Arabidopsis thaliana plant.

Cunha A, Tarr PT, Roeder AH, Altinok A, Mjolsness E, Meyerowitz EM.

Methods Cell Biol. 2012;110:285-323. doi: 10.1016/B978-0-12-388403-9.00012-6.

PMID:
22482954
10.

Measuring single-cell gene expression dynamics in bacteria using fluorescence time-lapse microscopy.

Young JW, Locke JC, Altinok A, Rosenfeld N, Bacarian T, Swain PS, Mjolsness E, Elowitz MB.

Nat Protoc. 2011 Dec 15;7(1):80-8. doi: 10.1038/nprot.2011.432.

11.

Towards Measurable Types for Dynamical Process Modeling Languages.

Mjolsness E.

Electron Notes Theor Comput Sci. 2010 Sep 6;265:123-144.

12.

A scalable and integrative system for pathway bioinformatics and systems biology.

Compani B, Su T, Chang I, Cheng J, Shah KH, Whisenant T, Dou Y, Bergmann A, Cheong R, Wold B, Bardwell L, Levchenko A, Baldi P, Mjolsness E.

Adv Exp Med Biol. 2010;680:523-34. doi: 10.1007/978-1-4419-5913-3_58.

13.

Parameter inference for discretely observed stochastic kinetic models using stochastic gradient descent.

Wang Y, Christley S, Mjolsness E, Xie X.

BMC Syst Biol. 2010 Jul 21;4:99. doi: 10.1186/1752-0509-4-99.

14.

A plausible mechanism for auxin patterning along the developing root.

Mironova VV, Omelyanchuk NA, Yosiphon G, Fadeev SI, Kolchanov NA, Mjolsness E, Likhoshvai VA.

BMC Syst Biol. 2010 Jul 21;4:98. doi: 10.1186/1752-0509-4-98.

15.

A 'random steady-state' model for the pyruvate dehydrogenase and alpha-ketoglutarate dehydrogenase enzyme complexes.

Najdi TS, Hatfield GW, Mjolsness ED.

Phys Biol. 2010 Mar 12;7:16016. doi: 10.1088/1478-3975/7/1/016016.

PMID:
20228444
16.

An exact accelerated stochastic simulation algorithm.

Mjolsness E, Orendorff D, Chatelain P, Koumoutsakos P.

J Chem Phys. 2009 Apr 14;130(14):144110. doi: 10.1063/1.3078490.

17.

Towards a calculus of biomolecular complexes at equilibrium.

Mjolsness E.

Brief Bioinform. 2007 Jul;8(4):226-33. Epub 2007 Jul 18. Review.

18.

On cooperative quasi-equilibrium models of transcriptional regulation.

Mjolsness E.

J Bioinform Comput Biol. 2007 Apr;5(2B):467-90.

PMID:
17636856
19.

Connectivity in the yeast cell cycle transcription network: inferences from neural networks.

Hart CE, Mjolsness E, Wold BJ.

PLoS Comput Biol. 2006 Dec 22;2(12):e169. Epub 2006 Oct 30.

20.

Application of a generalized MWC model for the mathematical simulation of metabolic pathways regulated by allosteric enzymes.

Najdi TS, Yang CR, Shapiro BE, Hatfield GW, Mjolsness ED.

J Bioinform Comput Biol. 2006 Apr;4(2):335-55.

PMID:
16819787
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