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Model-guided design of mammalian genetic programs.

Muldoon JJ, Kandula V, Hong M, Donahue PS, Boucher JD, Bagheri N, Leonard JN. Muldoon JJ, et al. Sci Adv. 2021 Feb 19;7(8):eabe9375. doi: 10.1126/sciadv.abe9375. Print 2021 Feb. Sci Adv. 2021. PMID: 33608279 Free PMC article.

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Macrophages employ quorum licensing to regulate collective activation.

Muldoon JJ, Chuang Y, Bagheri N, Leonard JN. Muldoon JJ, et al. Nat Commun. 2020 Feb 13;11(1):878. doi: 10.1038/s41467-020-14547-y. Nat Commun. 2020. PMID: 32054845 Free PMC article.

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Elucidation and refinement of synthetic receptor mechanisms.

Edelstein HI, Donahue PS, Muldoon JJ, Kang AK, Dolberg TB, Battaglia LM, Allchin ER, Hong M, Leonard JN. Edelstein HI, et al. Among authors: muldoon jj. Synth Biol (Oxf). 2020 Sep 30;5(1):ysaa017. doi: 10.1093/synbio/ysaa017. eCollection 2020. Synth Biol (Oxf). 2020. PMID: 33392392 Free PMC article.

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The COMET toolkit for composing customizable genetic programs in mammalian cells.

Donahue PS, Draut JW, Muldoon JJ, Edelstein HI, Bagheri N, Leonard JN. Donahue PS, et al. Among authors: muldoon jj. Nat Commun. 2020 Feb 7;11(1):779. doi: 10.1038/s41467-019-14147-5. Nat Commun. 2020. PMID: 32034124 Free PMC article.

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Nanofountain Probe Electroporation Enables Versatile Single-Cell Intracellular Delivery and Investigation of Postpulse Electropore Dynamics.

Nathamgari SSP, Pathak N, Lemaitre V, Mukherjee P, Muldoon JJ, Peng CY, McGuire T, Leonard JN, Kessler JA, Espinosa HD. Nathamgari SSP, et al. Among authors: muldoon jj. Small. 2020 Oct;16(43):e2002616. doi: 10.1002/smll.202002616. Epub 2020 Oct 2. Small. 2020. PMID: 33006271 Free PMC article.

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Multiplexing Engineered Receptors for Multiparametric Evaluation of Environmental Ligands.

Hartfield RM, Schwarz KA, Muldoon JJ, Bagheri N, Leonard JN. Hartfield RM, et al. Among authors: muldoon jj. ACS Synth Biol. 2017 Nov 17;6(11):2042-2055. doi: 10.1021/acssynbio.6b00279. Epub 2017 Aug 23. ACS Synth Biol. 2017. PMID: 28771312 Free PMC article.

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Network inference performance complexity: a consequence of topological, experimental and algorithmic determinants.

Muldoon JJ, Yu JS, Fassia MK, Bagheri N. Muldoon JJ, et al. Bioinformatics. 2019 Sep 15;35(18):3421-3432. doi: 10.1093/bioinformatics/btz105. Bioinformatics. 2019. PMID: 30932143 Free PMC article.

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GAMES: A Dynamic Model Development Workflow for Rigorous Characterization of Synthetic Genetic Systems.

Dray KE, Muldoon JJ, Mangan NM, Bagheri N, Leonard JN. Dray KE, et al. Among authors: muldoon jj. ACS Synth Biol. 2022 Feb 18;11(2):1009-1029. doi: 10.1021/acssynbio.1c00528. Epub 2022 Jan 13. ACS Synth Biol. 2022. PMID: 35023730

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Correction to "GAMES: A Dynamic Model Development Workflow for Rigorous Characterization of Synthetic Genetic Systems".

Dray KE, Muldoon JJ, Mangan NM, Bagheri N, Leonard JN. Dray KE, et al. Among authors: muldoon jj. ACS Synth Biol. 2022 Apr 15;11(4):1699-1704. doi: 10.1021/acssynbio.2c00082. Epub 2022 Mar 10. ACS Synth Biol. 2022. PMID: 35271255 Free PMC article. No abstract available.

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The Modifier of Transcription 1 (Mot1) ATPase and Spt16 Histone Chaperone Co-regulate Transcription through Preinitiation Complex Assembly and Nucleosome Organization.

True JD, Muldoon JJ, Carver MN, Poorey K, Shetty SJ, Bekiranov S, Auble DT. True JD, et al. Among authors: muldoon jj. J Biol Chem. 2016 Jul 15;291(29):15307-19. doi: 10.1074/jbc.M116.735134. Epub 2016 May 16. J Biol Chem. 2016. PMID: 27226635 Free PMC article.

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