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Analysis and verification of the HMGB1 signaling pathway.
Gong H, Zuliani P, Komuravelli A, Faeder JR, Clarke EM. Gong H, et al. Among authors: faeder jr. BMC Bioinformatics. 2010 Oct 15;11 Suppl 7(Suppl 7):S10. doi: 10.1186/1471-2105-11-S7-S10. BMC Bioinformatics. 2010. PMID: 21106117 Free PMC article.
RuleBender: a visual interface for rule-based modeling.
Xu W, Smith AM, Faeder JR, Marai GE. Xu W, et al. Among authors: faeder jr. Bioinformatics. 2011 Jun 15;27(12):1721-2. doi: 10.1093/bioinformatics/btr197. Epub 2011 Apr 14. Bioinformatics. 2011. PMID: 21493655 Free PMC article.
Regulatory network analysis acceleration with reconfigurable hardware.
Miskov-Zivanov N, Bresticker A, Krishnaswamy D, Venkatakrishnan S, Kashinkunti P, Marculescu D, Faeder JR. Miskov-Zivanov N, et al. Among authors: faeder jr. Annu Int Conf IEEE Eng Med Biol Soc. 2011;2011:149-52. doi: 10.1109/IEMBS.2011.6089916. Annu Int Conf IEEE Eng Med Biol Soc. 2011. PMID: 22254272
Rule-based modeling of signal transduction: a primer.
Sekar JA, Faeder JR. Sekar JA, et al. Among authors: faeder jr. Methods Mol Biol. 2012;880:139-218. doi: 10.1007/978-1-61779-833-7_9. Methods Mol Biol. 2012. PMID: 23361986 Review.
BioNetGen 2.2: advances in rule-based modeling.
Harris LA, Hogg JS, Tapia JJ, Sekar JA, Gupta S, Korsunsky I, Arora A, Barua D, Sheehan RP, Faeder JR. Harris LA, et al. Among authors: faeder jr. Bioinformatics. 2016 Nov 1;32(21):3366-3368. doi: 10.1093/bioinformatics/btw469. Epub 2016 Jul 8. Bioinformatics. 2016. PMID: 27402907 Free PMC article.
Automated visualization of rule-based models.
Sekar JAP, Tapia JJ, Faeder JR. Sekar JAP, et al. Among authors: faeder jr. PLoS Comput Biol. 2017 Nov 13;13(11):e1005857. doi: 10.1371/journal.pcbi.1005857. eCollection 2017 Nov. PLoS Comput Biol. 2017. PMID: 29131816 Free PMC article.
83 results