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Items: 8

1.

Rules for modeling signal-transduction systems.

Hlavacek WS, Faeder JR, Blinov ML, Posner RG, Hucka M, Fontana W.

Sci STKE. 2006 Jul 18;2006(344):re6. Review.

PMID:
16849649
2.

Rule-based modeling: a computational approach for studying biomolecular site dynamics in cell signaling systems.

Chylek LA, Harris LA, Tung CS, Faeder JR, Lopez CF, Hlavacek WS.

Wiley Interdiscip Rev Syst Biol Med. 2014 Jan-Feb;6(1):13-36. doi: 10.1002/wsbm.1245. Epub 2013 Sep 30. Review.

3.

Rule-based modeling of signal transduction: a primer.

Sekar JA, Faeder JR.

Methods Mol Biol. 2012;880:139-218. doi: 10.1007/978-1-61779-833-7_9. Review.

PMID:
23361986
4.

Mathematical formalisms based on approximated kinetic representations for modeling genetic and metabolic pathways.

Alves R, Vilaprinyo E, Hernádez-Bermejo B, Sorribas A.

Biotechnol Genet Eng Rev. 2008;25:1-40. Review.

PMID:
21412348
5.

Computational modeling of signal transduction networks: a pedagogical exposition.

Prasad A.

Methods Mol Biol. 2012;880:219-41. doi: 10.1007/978-1-61779-833-7_10. Review.

PMID:
23361987
6.

Inferring network interactions within a cell.

Carter GW.

Brief Bioinform. 2005 Dec;6(4):380-9. Review.

PMID:
16420736
7.

Modeling biomolecular site dynamics in immunoreceptor signaling systems.

Chylek LA, Wilson BS, Hlavacek WS.

Adv Exp Med Biol. 2014;844:245-62. doi: 10.1007/978-1-4939-2095-2_12. Review.

PMID:
25480645
8.

Modeling for (physical) biologists: an introduction to the rule-based approach.

Chylek LA, Harris LA, Faeder JR, Hlavacek WS.

Phys Biol. 2015 Jul 16;12(4):045007. doi: 10.1088/1478-3975/12/4/045007. Review.

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