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Results: 1 to 20 of 38

1.

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
[PubMed - indexed for MEDLINE]
2.

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.

PMID:
24137172
[PubMed]
Free PMC Article
3.

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.

PMID:
23735739
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

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.

PMID:
23514469
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

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.

PMID:
23231214
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

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.

PMID:
22510326
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

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
[PubMed - indexed for MEDLINE]
8.

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.

PMID:
22179594
[PubMed - indexed for MEDLINE]
9.

Towards Measurable Types for Dynamical Process Modeling Languages.

Mjolsness E.

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

PMID:
21572536
[PubMed]
Free PMC Article
10.

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.

PMID:
20865537
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

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.

PMID:
20663171
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

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.

PMID:
20663170
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

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
[PubMed - indexed for MEDLINE]
14.

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.

PMID:
19368432
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Towards a calculus of biomolecular complexes at equilibrium.

Mjolsness E.

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

PMID:
17640924
[PubMed - indexed for MEDLINE]
Free Article
16.

On cooperative quasi-equilibrium models of transcriptional regulation.

Mjolsness E.

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

PMID:
17636856
[PubMed - indexed for MEDLINE]
17.

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.

PMID:
17194216
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

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
[PubMed - indexed for MEDLINE]
19.

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.

Proc IEEE Comput Syst Bioinform Conf. 2005:279-88.

PMID:
16447985
[PubMed - indexed for MEDLINE]
20.

An auxin-driven polarized transport model for phyllotaxis.

J├Ânsson H, Heisler MG, Shapiro BE, Meyerowitz EM, Mjolsness E.

Proc Natl Acad Sci U S A. 2006 Jan 31;103(5):1633-8. Epub 2006 Jan 13.

PMID:
16415160
[PubMed - indexed for MEDLINE]
Free PMC Article

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