Department of Biochemistry & Molecular Biophysics

2018

Dual-radiolabeled nanoparticle probes for depth-independent in vivo imaging of enzyme activation

Black, K. C. L., Zhou, M., Sarder, P., Kuchuk, M., Al-Yasiri, A. Y., Gunsten, S. P., Liang, K., Hennkens, H. M., Akers, W. J., Laforest, R., Brody, S. L., Cutler, C. S. & Achilefu, S., 2018, Reporters, Markers, Dyes, Nanoparticles, and Molecular Probes for Biomedical Applications X. Achilefu, S. & Raghavachari, R. (eds.). SPIE, 1050805. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 10508).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

2014

Near infrared fluorescence quenching properties of copper (II) ions for potential applications in biological imaging

Maji, D., Zhou, M., Sarder, P. & Achilefu, S., 2014, Reporters, Markers, Dyes, Nanoparticles, and Molecular Probes for Biomedical Applications VI. SPIE, 89560K. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 8956).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

5 Scopus citations

2013

Synthesize dye-bioconjugates to visualize cancer cells using fluorescence microscopy

Pu, Y., Tang, R., Xue, J., Wang, W. B., Xu, B., Shen, D., Bloch, S., Zhou, M., Achilefu, S. & Alfano, R. R., 2013, Imaging, Manipulation, and Analysis of Biomolecules, Cells, and Tissues XI. 85871Z. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 8587).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

2012

Confidence intervals for estimation of the concentration and brightness of multiple diffusing species

Rong, X., Pryse, K. M., Whisler, J. A., Jiang, Y., McConnaughey, W. B., Melnykov, A., Genin, G. M. & Elson, E. L., 2012, ASME 2012 Summer Bioengineering Conference, SBC 2012. p. 791-792 2 p. (ASME 2012 Summer Bioengineering Conference, SBC 2012).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

Confidence intervals for estimation of the concentration and brightness of multiple diffusing species

Abney, T. M., Wakatsuki, T., Elson, E. L. & Genin, G., 2012, ASME 2012 Summer Bioengineering Conference, SBC 2012. p. 673-674 2 p. (ASME 2012 Summer Bioengineering Conference, SBC 2012).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

Developing a novel integrated model of p38 MAPK and glucocorticoid signalling pathways

Holehouse, A., Yang, X., Adcock, I. & Guo, Y., 2012, 2012 IEEE Symposium on Computational Intelligence and Computational Biology, CIBCB 2012. p. 69-76 8 p. 6217213. (2012 IEEE Symposium on Computational Intelligence and Computational Biology, CIBCB 2012).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

1 Scopus citations

Interfacial phases on giant unilamellar vesicles

Jiang, Y., Genin, G. M., Singamaneni, S. & Elson, E. L., 2012, ASME 2012 Summer Bioengineering Conference, SBC 2012. p. 705-706 2 p. (ASME 2012 Summer Bioengineering Conference, SBC 2012).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

2011

A multi-dimensional approach for comprehensive LC-MS/MS identification and quantitation of highly-modified protein systems

DiMaggio, P. A., Young, N. L. & Garcia, B. A., 2011, 2011 Annual Meeting of the American Electrophoresis Society, AES 2011 - Topical Conference at the 2011 AIChE Annual Meeting. AIChE, p. 126-127 2 p. (2011 Annual Meeting of the American Electrophoresis Society, AES 2011 - Topical Conference at the 2011 AIChE Annual Meeting).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

Copernicus: A new paradigm for parallel adaptive molecular dynamics

Pronk, S., Larsson, P., Pouya, I., Bowman, G. R., Haque, I. S., Beauchamp, K., Hess, B., Pande, V. S., Kasson, P. M. & Lindahl, E., 2011, Proceedings of 2011 SC - International Conference for High Performance Computing, Networking, Storage and Analysis. 60. (Proceedings of 2011 SC - International Conference for High Performance Computing, Networking, Storage and Analysis).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

38 Scopus citations

Dynamics of stretch-induced stress fiber remodeling in 3D cell culture

Lee, S. L., Nekouzadeh, A., Pryse, K. M., Elson, E. L. & Genin, G. M., Dec 1 2011, ASME 2011 Summer Bioengineering Conference, SBC 2011. PARTS A AND B ed. p. 471-472 2 p. (ASME 2011 Summer Bioengineering Conference, SBC 2011; no. PARTS A AND B).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

Pilot-Protein: A high-throughput method for in silico discovery of peptides, proteins, and post-translational modifications

Baliban, R., DiMaggio, P. A., Li, Z., Plazas-Mayorca, M., Garcia, B. A. & Floudas, C. A., 2011, 2011 Annual Meeting of the American Electrophoresis Society, AES 2011 - Topical Conference at the 2011 AIChE Annual Meeting. AIChE, p. 124-125 2 p. (2011 Annual Meeting of the American Electrophoresis Society, AES 2011 - Topical Conference at the 2011 AIChE Annual Meeting).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

2010

Constructing multi-resolution markov state models (MSMS) to elucidate RNA hairpin folding mechanisms

Huang, X., Yao, Y., Bowman, G. R., Sun, J., Guibas, L. J., Carlsson, G. & Pande, V. S., 2010, Pacific Symposium on Biocomputing 2010, PSB 2010. p. 228-239 12 p. (Pacific Symposium on Biocomputing 2010, PSB 2010).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

65 Scopus citations

Mechanzically-induced cytoskeletal remodeling in 3D cultures of contractile fibroblasts

Lee, S. L., Pryse, K. M., Butler, B., Elson, E. L. & Genin, G. M., 2010, ASME 2010 Summer Bioengineering Conference, SBC 2010. PARTS A AND B ed. p. 201-202 2 p. (ASME 2010 Summer Bioengineering Conference, SBC 2010; no. PARTS A AND B).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

Probing cytoskeletal mechanics using biochemical inhibitors

Pryse, K. M., Abney, T. M., Genin, G. M. & Elson, E. L., 2010, ASME 2010 Summer Bioengineering Conference, SBC 2010. PARTS A AND B ed. p. 357-358 2 p. (ASME 2010 Summer Bioengineering Conference, SBC 2010; no. PARTS A AND B).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

2009

Active and passive responses of myofibroblasts in response to mechanical stretching in 3D culture

Nathan, A. C., Lee, S. L., Marquez, J. P., Ju, T., Pryse, K. M., Elson, E. L. & Genin, G. M., 2009, Proceedings of the ASME Summer Bioengineering Conference, SBC2008. PART B ed. p. 649-650 2 p. (Proceedings of the ASME Summer Bioengineering Conference, SBC2008; no. PART B).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

1 Scopus citations

Mechanics of aortic smooth muscle cells in tissue constructs: Effects of matrix composition

Du, W., Pryse, K. M., Elson, E. L. & Okamoto, R. J., 2009, Proceedings of the ASME Summer Bioengineering Conference, SBC2008. PART A ed. p. 515-516 2 p. (Proceedings of the ASME Summer Bioengineering Conference, SBC2008; no. PART A).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

2008

A novel mixed-integer linear optimization framework for the identification of post-translationally modified proteins using ETD/ECD tandem mass spectrometry

Dimaggio, P. A., Baliban, R., Garcia, B. A. & Floudas, C. A., 2008, AIChE100 - 2008 AIChE Annual Meeting, Conference Proceedings. (AIChE Annual Meeting, Conference Proceedings).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

2007

Vascular smooth muscle cell mechanics during cyclic stretch -effect of serum and a serum substitute

Du, W., Pryse, K. M., Fee, J. A., Elson, E. L. & Okamoto, R. J., 2007, Proceedings of the ASME Summer Bioengineering Conference 2007, SBC 2007. American Society of Mechanical Engineers (ASME), p. 267-268 2 p. (Proceedings of the ASME Summer Bioengineering Conference 2007, SBC 2007).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

1 Scopus citations

2006

Cell and matrix mechanics determined by cyclic stretch of bioartificial tissues

Wille, J. J., Elson, E. L. & Okamoto, R. J., 2006, Proceedings of the 2006 SEM Annual Conference and Exposition on Experimental and Applied Mechanics 2006. p. 2094-2100 7 p. (Proceedings of the 2006 SEM Annual Conference and Exposition on Experimental and Applied Mechanics 2006; vol. 4).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

1 Scopus citations

2005

Tubular constructs for studying the mechanical and functional properties of engineered cardiac tissue

Wille, J. J., Wakatsuki, T., Elson, E. L. & Okamoto, R. J., 2005, Proceedings of the 2005 Summer Bioengineering Conference, 2005 SBC. p. 715-716 2 p. (Proceedings of the 2005 Summer Bioengineering Conference; vol. 2005).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

1999

Alternative pathways of epidermal growth factor receptor mediated contractile force in NR6 fibroblasts

Allen, F. D., Asnes, C. F., Wells, A., Elson, E. L. & Lauffenburger, D. A., 1999, American Society of Mechanical Engineers, Bioengineering Division (Publication) BED. ASME, Vol. 43. p. 113-114 2 p.

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

ALTERNATIVE PATHWAYS OF EPIDERMAL GROWTH FACTOR RECEPTOR MEDIATED CONTRACTILE FORCE IN NR6 FIBROBLASTS

Allen, F. D., Asnes, C. F., Wells, A., Elson, E. L. & Lauffenburger, D. A., 1999, Advances in Bioengineering. American Society of Mechanical Engineers (ASME), p. 113-114 2 p. (ASME International Mechanical Engineering Congress and Exposition, Proceedings (IMECE); vol. 1999-D).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

Epidermal growth factor mediated contractile force in NR6 fibroblast cells grown in a collagen lattice

Allen, F. D., Asnes, C. F., Wells, A., Elson, E. L. & Lauffenburger, D. A., Dec 1 1999, American Society of Mechanical Engineers, Bioengineering Division (Publication) BED. ASME, Vol. 42. p. 335-336 2 p.

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

1995

De novo design of ligands

Ho, C. M. W. & Marshall, G. R., 1995, Proceedings of the Hawaii International Conference on System Sciences. Nunamaker, J. F. & Sprague, R. H. J. (eds.). Publ by IEEE, p. 213-222 10 p. (Proceedings of the Hawaii International Conference on System Sciences; vol. 5).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

4 Scopus citations

Properties of intraglobular contacts in proteins: An approach to prediction of tertiary structure

Galaktionov, S. G. & Marshall, G. R., 1995, Proceedings of the Hawaii International Conference on System Sciences. Nunamaker, J. F. & Sprague, R. H. J. (eds.). Publ by IEEE, p. 326-335 10 p. (Proceedings of the Hawaii International Conference on System Sciences; vol. 5).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

22 Scopus citations

Department of Biochemistry & Molecular Biophysics

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