Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 61

1.

CytoSys: a tool for extracting cell-cycle-related expression dynamics from static data.

Avva J, Weis MC, Soebiyanto RP, Jacobberger JW, Sreenath SN.

Methods Mol Biol. 2011;717:171-93. doi: 10.1007/978-1-61779-024-9_10.

PMID:
21370031
2.

Dynamic epitope expression from static cytometry data: principles and reproducibility.

Jacobberger JW, Avva J, Sreenath SN, Weis MC, Stefan T.

PLoS One. 2012;7(2):e30870. doi: 10.1371/journal.pone.0030870. Epub 2012 Feb 8.

3.

A data integration approach for cell cycle analysis oriented to model simulation in systems biology.

Alfieri R, Merelli I, Mosca E, Milanesi L.

BMC Syst Biol. 2007 Aug 1;1:35.

4.

E-photosynthesis: web-based platform for modeling of complex photosynthetic processes.

Safránek D, Cervený J, Klement M, Pospíšilová J, Brim L, Lazár D, Nedbal L.

Biosystems. 2011 Feb;103(2):115-24. doi: 10.1016/j.biosystems.2010.10.013. Epub 2010 Nov 10.

PMID:
21073914
5.

Modeling biochemical transformation processes and information processing with Narrator.

Mandel JJ, Fuss H, Palfreyman NM, Dubitzky W.

BMC Bioinformatics. 2007 Mar 27;8:103.

6.

Flow-based cytometric analysis of cell cycle via simulated cell populations.

Brown MR, Summers HD, Rees P, Smith PJ, Chappell SC, Errington RJ.

PLoS Comput Biol. 2010 Apr 15;6(4):e1000741. doi: 10.1371/journal.pcbi.1000741.

7.

Cytokinetic analysis of cell cycle and sub-phases in MOLT-4 cells by cyclin E + A/DNA multiparameter flow cytometry.

Qin J, Tao D, Duan R, Leng Y, Shen M, Zhou H, Feng Y, Gao C, Yu Y, Li QQ, Hu J, Gong J.

Oncol Rep. 2002 Sep-Oct;9(5):1041-5.

PMID:
12168070
8.

Introductory review of computational cell cycle modeling.

Kriete A, Noguchi E, Sell C.

Methods Mol Biol. 2014;1170:267-75. doi: 10.1007/978-1-4939-0888-2_12. Review.

9.

Computational systems biology and dose-response modeling in relation to new directions in toxicity testing.

Zhang Q, Bhattacharya S, Andersen ME, Conolly RB.

J Toxicol Environ Health B Crit Rev. 2010 Feb;13(2-4):253-76. doi: 10.1080/10937404.2010.483943.

PMID:
20574901
10.

Dynamic simulation of regulatory networks using SQUAD.

Di Cara A, Garg A, De Micheli G, Xenarios I, Mendoza L.

BMC Bioinformatics. 2007 Nov 26;8:462.

11.

Petri nets in Snoopy: a unifying framework for the graphical display, computational modelling, and simulation of bacterial regulatory networks.

Marwan W, Rohr C, Heiner M.

Methods Mol Biol. 2012;804:409-37. doi: 10.1007/978-1-61779-361-5_21.

PMID:
22144165
12.

A Novel Method to Verify Multilevel Computational Models of Biological Systems Using Multiscale Spatio-Temporal Meta Model Checking.

Pârvu O, Gilbert D.

PLoS One. 2016 May 17;11(5):e0154847. doi: 10.1371/journal.pone.0154847. eCollection 2016.

13.

Calibration of dynamic models of biological systems with KInfer.

Lecca P, Palmisano A, Ihekwaba A, Priami C.

Eur Biophys J. 2010 May;39(6):1019-39. doi: 10.1007/s00249-009-0520-3. Epub 2009 Aug 11.

PMID:
19669750
14.

Network legos: building blocks of cellular wiring diagrams.

Murali TM, Rivera CG.

J Comput Biol. 2008 Sep;15(7):829-44. doi: 10.1089/cmb.2007.0139.

PMID:
18707557
15.

Communicating oscillatory networks: frequency domain analysis.

Ihekwaba AE, Sedwards S.

BMC Syst Biol. 2011 Dec 22;5:203. doi: 10.1186/1752-0509-5-203.

16.

CytoModeler: a tool for bridging large-scale network analysis and dynamic quantitative modeling.

Xia T, Van Hemert J, Dickerson JA.

Bioinformatics. 2011 Jun 1;27(11):1578-80. doi: 10.1093/bioinformatics/btr150. Epub 2011 Apr 20.

17.

Modeling the cell cycle: from deterministic models to hybrid systems.

Alfieri R, Bartocci E, Merelli E, Milanesi L.

Biosystems. 2011 Jul;105(1):34-40. doi: 10.1016/j.biosystems.2011.03.002. Epub 2011 Mar 29.

PMID:
21453748
18.

Dynamic expression profiles from static cytometry data: component fitting and conversion to relative, "same scale" values.

Avva J, Weis MC, Sramkoski RM, Sreenath SN, Jacobberger JW.

PLoS One. 2012;7(7):e38275. doi: 10.1371/journal.pone.0038275. Epub 2012 Jul 12.

19.

Computational Modeling, Formal Analysis, and Tools for Systems Biology.

Bartocci E, Lió P.

PLoS Comput Biol. 2016 Jan 21;12(1):e1004591. doi: 10.1371/journal.pcbi.1004591. eCollection 2016 Jan. Review.

20.

A hybrid model of cell cycle in mammals.

Behaegel J, Comet JP, Bernot G, Cornillon E, Delaunay F.

J Bioinform Comput Biol. 2016 Feb;14(1):1640001. doi: 10.1142/S0219720016400011. Epub 2015 Nov 23.

PMID:
26708052

Supplemental Content

Support Center