Publications

Ichikawa D, Corbi-Verge C, Shen M, Snider J, Wong V, Stagljar I, Kim P, and Noyes, MB (2019) A multi-reporter bacterial 2-hybrid assay for the high-throughput and dynamic assay of PDZ domain – peptide interactions. ACS Synth. Biol.  Doi: 10.1021/acssynbio.8b00499

Brandt JP, Rossillo M, Zhuo D, Ichikawa D, Barnes K, Chen A, Noyes MB, Bao Z, and Ringstad N (2019) Lineage context switches the function of a C. elegans Pax6 homolog in determining a neuronal fate. Development, doi: 10.1242/dev.168153 

Pekar O, Ow MC, Hui KY, Noyes MB, Hall SE, and Hubbard EJA (2017) Linking the envirionment, DAF-7/TGF signaling and LAG-2/DSL ligand expression in the germline stem cell niche. Development, 144, 2896-2906.

Baliga NS, Björkegren JL, Boeke JD, Boutros M, Crawford NP, Dudley AM, Farber CR, Jones A, Levey AI, Lusis AJ, Mak HC, Nadeau JH, Noyes MB, Petretto E, Seyfried NT, Steinmetz LM, Vonesch SC (2017) The State of Systems Genetics in 2017. Cell Syst., 4, 7-15.

Oakes, BL, Xia, DF, Rowland, EF, Xu, DJ, Ankoudinova, I, Borchart, J Zhang, L, Li, P, Miller, JC, Rebar, EJ, and Noyes, MB (2016) A Multi-reporter selection for the design of active and more specific zinc-finger nucleases for genome editing. Nature Communications. DOI: 10.1038/ncomms10194

Persikov, AV, Wetzel, J, Rowland, EF, Oakes, BL, Xu, DJ, Singh, M and Noyes, MB (2015) A systematic survey of the Cys2His2 zinc finger DNA-binding landscape. Nucleic Acids Res, 43, 1965-84.

·               Designated a Breakthrough Article

Xu, DJ and Noyes, MB (2014) Understanding DNA-binding Specificity by Bacterial Hybrid Selection. Briefings in Functional Genomics, Epub Dec 23, 2014, PMID: 25539837

Persikov, AV, Rowland, EF, Oakes, BL, Singh, M. and Noyes, MB (2014) Deep sequencing of large library selections allows computational discovery of diverse sets of zinc fingers that bind common targets. Nucleic Acids Res, 42,1497-508

McIsaac, RS, Oakes, BL, Botstein, D. and Noyes, MB (2013) Rapid synthesis and screening of chemically activated transcription factors with GFP-based reporters. J Vis Exp., doi: 10.3791/51153.

McIsaac, RS, Oakes, BL, Wang, X, Dummit, KA, Botstein, D and Noyes, MB (2013) Synthetic gene expression perturbation systems with rapid, tunable, single-gene specificity in yeast. Nucleic Acids Research, 41, No. 4 e57

Chu, SW*, Noyes, MB*, Christensen, RG, Pierce BG, et al (2012) Exploring the DNA-Recognition Potential of Homeodomains. Genome Research, 22,1889-98.

Noyes MB (2011) Analysis of Specific Protein-DNA Interactions by Bacterial One-Hybrid Assay. Methods Mol. Biol., 786, 79-95.

Noyes M.B., Christensen R.G., Wakabayashi A., Stormo G.D., Brodsky, M.H., and Wolfe, S.A. (2008).  Analysis of homeodomain specificities allows the family-wide prediction of preferred recognition sites. Cell, 133, 1277-1289.

·               highlighted in Editor’s Choice section (2008). Science, 321, 16.

Noyes M.B., Meng X., Wakabayashi A., Brodsky M.H., and Wolfe S.A. (2008) A systematic characterization of factors that regulate Drosophila segmentation via a bacterial one-hybrid system. Nucleic Acids Research, 38, 2547-60.  

Meng X., Noyes M.B., Zhu L., Lawson N.D., and Wolfe S.A. (2008) Targeted gene inactivation in zebrafish using engineered zinc finger nucleases. Nature Biotechnology, 26, 695-701.

Anderson, D.M., George, R., Noyes, M.B., Rowton, M., et al (2012) Characterization of the DNA-binding properties of the Mohawk homeobox transcription factor. J. Biol Chem, 42, 35351-9.

Christensen RG, Enuameh MS, Noyes MB, Brodsky MH, Wolfe SA, Stormo GD. (2012). Recognition Models to Predict DNA-binding Specificities of Homeodomain Proteins. Bioinformatics, 12, 184-9.