Lahti, J. L., Silverman, A. P., Cochran, J. R. (2009) Interrogation and Prediction of Tolerated Sequence Diversity in Protein Folds: Application to E. elaterium Trypsin Inhibitor-II Cystine-Knot Miniprotein. PLoS Computational Biology, 5, e1000499.

Silverman, A. P., Kariolis, M., and Cochran, J. R. Cystine-Knot Peptides Engineered for Binding Specificity to a_iibb₃ Integrin are Potent Inhibitors of Platelet Aggregation. Submitted for publication.

Kimura, R. H., Levin, A. M., Cochran, F. V., and Cochran, J. R. (2009) Engineered Cystine Knot Peptides that Bind alphavbeta3, alphavbeta5, and alpha5beta1 Integrins with Low Nanomolar Affinity. Proteins: Structure, Function, and Bioinformatics. 77, 359-69.

Silverman, A. P., Levin, A. M., Lahti, J. L., and Cochran, J. R. (2009) Engineered Cystine-Knot Peptides That Bind alphav beta3 Integrin with Antibody-Like Affinities. Journal of Molecular Biology, 385, 1064-75.

Jones, D.S., Silverman, A.P., Cochran, J.R. (2008) Developing Therapeutic Proteins by Engineering Ligand-Receptor Interactions. Trends in Biotechnology, 26, 498-505. 

Cochran, J. R., Kim, Y., Lippow, S. M., Rao, B., and Wittrup, K. D. (2006) Improved Mutants from Directed Evolution are Biased to Orthologous Substitutions. Protein Engineering Design and Selection, 19, 245-53.

Engineered Proteins as Molecular Imaging Agents

Miao, Z., Ren G., Liu, H., Kimura, R.H., Jiang, L., Cochran, J.R., Gambhir, S.S, Cheng, Z. (2009) An Engineered Knottin Peptide Labeled with 18F for PET Imaging of Integrin Expression. In press, Bioconjugate Chemistry.

Cochran, F.V., and Cochran, J.R. (2009) Phage Display and Molecular Imaging: Expanding Fields of Vision in Living Subjects. Submitted, Biotechnology and Genetic Engineering Reviews.Kimura, R. H., Miao, Z., Cheng, Z., Gambhir, S. S., Cochran, J. R. A Dual-Labeled Knottin Peptide for PET and Near-Infrared Fluorescence Imaging of Integrin Expression in Living Subjects. Under revision.

Willmann, J. K., Kimura, R. H., Deshpande, N., Lutz, A. M., Rosenberg, J., Cochran, J. R., Gambhir, S. S. Design and Testing of a Novel Ultrasound Contrast Agent for Molecular Ultrasound Imaging of Tumor Angiogenesis. Under revision.

Jiang, L., Kimura, R. H., Miao, Z., Silverman, A. P., Ren, G., Liu, H. G., Li, P. Y., Gambhir, S. S., Cochran, J. R.^†, and Cheng, Z.^†  (2009) Evaluation of a ⁶⁴Cu-Labeled Cystine-Knot Peptide Based on Agouti Related Protein for PET Imaging of Tumors Expressing α_vβ₃ Integrin. In press, Journal of Nuclear Medicine. ^†co-corresponding authors.

Kimura, R. H., Cheng, Z., Gambhir, S.S., and Cochran, J. R. (2009) Engineered Knottin Peptides: A New Class of Agents for Imaging Integrin Expression in Living Subjects. Cancer Research, 69, 2435-42.

Cancer Therapy

Garrett, T.P., Burgess, A.W., Gan, H.K., Luwor, R.B., Cartwright, G., Walker, F., Orchard, S.G., Clayton, A.H., Nice, E.C., Rothacker, J., Catimel, B., Cavenee, W.K., Old, L.J., Stockert, E., Ritter, G., Adams, T.E., Hoyne, P.A., Wittrup, K.D., Chao, G., Cochran, J.R., Luo, C., Lou, M., Huyton, T., Xu, Y., Fairlie, W.D., Yao, S., Scott, A.M., and Johns, T.G. (2009) Antibodies Specifically Targeting a Locally Misfolded Region of Tumor Associated EGFR. Proceedings of the National Academy of Science, 106, 5082-7.

Biophysics

Hanick, N. A., Rickert, M., Varani, L., Bankovich, A. J., Cochran, J. R., Kim, D. M., Surh, C. D., and Garcia, K. C. (2007) Elucidation of the Interleukin-15 binding site on its alpha receptor by NMR. Biochemistry, 46, 9453-61.

Tissue Engineering: Artificial cornea project

Hartmann, L., Watanabe, K., Kim, C.Y., Zheng, L. L., Beck, S. E., Huie, P., Noolandi, J., Cochran, J. R., Ta, C. N., Frank, C. W. Developing an Artificial Cornea: Long-term Stability of Interpenetrating Polymer Networks. Submitted for publication.

Myung, D., Farooqui, N., Zheng, L., Koh, W., Gupta, S. Noolandi, J., Cochran, J. R., Frank, C. W., Ta, C. N. (2009) Bioactive Interpenetrating Polymer Network Hydrogels that Support Corneal Surface Epithelial Wound Healing, Journal of Biomedical Materials Research, Part A,  90, 70-81.

Myung, D., Duhamel, P.E., Cochran, J. R., Noolandi, J., Ta, C.N., and Frank, C. W. (2008) Development of Hydrogel-Based Keratoprostheses: A Materials Perspective. Biotechnology Progress, 24, 735-741.

Myung, D., Koh, W., Bakri, A., Zhang, F., Marshall, A., Ko, J., Noolandi, J., Carrasco, M., Cochran, J. R., Frank, C. W., Ta, C. N. (2007) Design and Fabrication of an Artificial Cornea Based on a Photolithographically Patterned Hydrogel Construct. Biomedical Microdevices. 9, 911-22.

Lahti, J. L., and Cochran, J. R. (2009) “Yeast Surface Display”, in Therapeutic Antibodies: from Theory to Practice, Zhiqiang An and William Strohl, eds., John Wiley & Sons, Inc.  Release date: October 2009.

Moore, S. J., Olsen, M. J., Cochran J.R., and Cochran, F.V. (2009) “Cell Surface Display Systems for Protein Engineering” in Protein Engineering and Design, Sheldon J. Park and Jennifer R. Cochran, eds., Taylor and Francis, Boca Raton. Release date: September 25, 2009.

Sheldon J. Park and Jennifer R. Cochran, eds. (2009) Protein Engineering and Design, Taylor and Francis, Boca Raton. Release date: September 25, 2009.