Below are our collaborators and examples of joint publications.
Departments of Pathology and Genome Sciences, University of Washington
Molecular Biology of Double Strand Breaks; Homing Endonucleases. Flick, K.E., Jurica, M. S., Monnat, R. J. Jr., and Stoddard, B. L. (1998) "DNA binding and cleavage by the nuclear intron-encoded homing endonuclease I-PpoI" Nature 394: 96 - 101. Jurica, M. S., Monnat, R. J. Jr. and Stoddard, B. L. (1998) "DNA recognition and cleavage by the LAGLIDADG homing endonuclease I-CreI" Molecular
Department of Pediatrics, University of Washington School of Medicine
Molecular Biology of Ions Channels; Gene Therapy and SCID disorders Shen, B. W., Perraud, A. -L.,Scharenberg, A. M. and Stoddard, B. L. (2003) "The crystal structure and mutational analysis of human NUDT9" J. Mol. Biol. 332(2):385-98.
Institute for Protein Design, University of Washington
Protein Structure Prediction and Engineering Kuhlman, B., Dantas, G., Ireton, G., Varani, G., Stoddard, B. L. and Baker, D.(2004) "Design of a novel protein fold with atomic accuracy" Science 302: 1364 - 1368. Korkegian, A., Baker, D. and Stoddard, B. L. (2005) "Computational thermostabilization of an enzyme catalyst" Science 308: 857 - 860
Department of Pharmaceutical Sciences
Washington State University
Ireton, G., McDermitt, G., Black, M. and Stoddard, B. L. (2002) "The structure of Escherichia coli cytosine deaminase" J. Mol. Biol. 315(4): 687 - 697.
Molecular Biology of Restriction Endonucleases, Polymerases and Kinase/Phosphatases Galburt, E., Pelletier, J., Wilson G., and Stoddard, B. L. (2002) "Structure of a tRNA repair enzyme and molecular biology workhorse, T4 polynucleotide kinase" Structure 10 (9): 1249 - 1260.
Fred Hutch Computational Biology
Doyle, L. A., Hallinan, J. P., Bolduc, J. M., Stoddard, B. L. and Bradley, P. (2015) "Rational design of alpha-helical tandem repeat proteins with closed architectures" Nature 528: 585 - 588. PMID 26675735
Fred Hutch Clinical Research Division
Romano Ibarra GS, Paul B, Sather BD, Younan PM, Sommer K, Kowalski JP, Hale M, Stoddard B, Jarjour J, Astrakhan A, Kiem HP, Rawlings DJ. (2016) "Efficient Modification of the CCR5 Locus in Primary Human T Cells With megaTAL Nuclease Establishes HIV-1 Resistance" Mol Ther Nucleic Acids. 2016 Aug 23;5(8):e352. doi: 10.1038/mtna.2016.56.