Whiting School of Engineering

Research Output

2014

3D optical coherence tomography image registration for guiding cochlear implant insertion

Cheon, G. W., Jeong, H. W., Chalasani, P., Chien, W. W., Iordachita, I., Taylor, R., Niparko, J. & Kang, J. U., Jan 1 2014, Photonic Therapeutics and Diagnostics X. SPIE, 89261Z. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 8926).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

A $3 trillion challenge to computational scientists: Transforming healthcare delivery

Saria, S., Jul 1 2014, In : IEEE Intelligent Systems. 29, 4, p. 82-87 6 p., 6908959.

Research output: Contribution to journalArticle

A comprehensive, high-resolution map of a Gene's fitness landscape

Firnberg, E., Labonte, J. W., Gray, J. J. & Ostermeier, M., Jun 2014, In : Molecular biology and evolution. 31, 6, p. 1581-1592 12 p.

Research output: Contribution to journalArticle

A computational model for the formation of lamin-B mitotic spindle envelope and matrix

Shi, C., Channels, W. E., Zheng, Y. & Iglesias, P. A., Jan 1 2014, In : Interface Focus. 4, 3

Research output: Contribution to journalArticle

Adjutant: A framework for flexible human-machine collaborative systems

Guerin, K. R., Riedel, S. D., Bohren, J. & Hager, G. D., Oct 31 2014, IROS 2014 Conference Digest - IEEE/RSJ International Conference on Intelligent Robots and Systems. Institute of Electrical and Electronics Engineers Inc., p. 1392-1399 8 p. 6942739. (IEEE International Conference on Intelligent Robots and Systems).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

A multi-function force sensing instrument for variable admittance robot control in retinal microsurgery

He, X., Balicki, M., Gehlbach, P., Handa, J., Taylor, R. & Iordachita, I., Sep 22 2014, In : Proceedings - IEEE International Conference on Robotics and Automation. p. 1411-1418 8 p., 6907037.

Research output: Contribution to journalConference article

An adaptive grid for graph-based segmentation in retinal OCT

Lang, A., Carass, A., Calabresi, P. A., Ying, H. S. & Prince, J. L., Jan 1 2014, Medical Imaging 2014: Image Processing. SPIE, 903402. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 9034).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Analysis of macular OCT images using deformable registration

Chen, M., Lang, A., Ying, H. S., Calabresi, P. A., Prince, J. L. & Carass, A., Jun 1 2014, In : Biomedical Optics Express. 5, 7, p. 2196-2214 19 p.

Research output: Contribution to journalArticle

An image-guidance system for dynamic dose calculation in prostate brachytherapy using ultrasound and fluoroscopy

Kuo, N., Dehghan, E., Deguet, A., Mian, O. Y., Le, Y., Burdette, E. C., Fichtinger, G., Prince, J. L., Song, D. Y. & Lee, J., Sep 2014, In : Medical physics. 41, 9, 091712.

Research output: Contribution to journalArticle

An open-source research kit for the da Vinci® Surgical System

Kazanzidesf, P., Chen, Z., Deguet, A., Fischer, G. S., Taylor, R. H. & Dimaio, S. P., Sep 22 2014, In : Proceedings - IEEE International Conference on Robotics and Automation. p. 6434-6439 6 p., 6907809.

Research output: Contribution to journalConference article

A submillimetric 3-DOF force sensing instrument with integrated fiber bragg grating for retinal microsurgery

He, X., Handa, J., Gehlbach, P., Taylor, R. & Iordachita, I., Feb 1 2014, In : IEEE Transactions on Biomedical Engineering. 61, 2, p. 522-534 13 p., 6609063.

Research output: Contribution to journalArticle

Automated image alignment and segmentation to follow progression of geographic atrophy in age-related macular degeneration

Ramsey, D. J., Sunness, J. S., Malviya, P., Applegate, C., Hager, G. D. & Handa, J. T., Jul 2014, In : Retina. 34, 7, p. 1296-1307 12 p.

Research output: Contribution to journalArticle

Automated MRI parcellation of the frontal lobe

Ranta, M. E., Chen, M., Crocetti, D., Prince, J. L., Subramaniam, K., Fischl, B., Kaufmann, W. E. & Mostofsky, S. H., May 2014, In : Human Brain Mapping. 35, 5, p. 2009-2026 18 p.

Research output: Contribution to journalArticle

Automatic method for thalamus parcellation using multi-modal feature classification

Stough, J. V., Glaister, J., Ye, C., Ying, S. H., Prince, J. L. & Carass, A., Jan 1 2014, Medical Image Computing and Computer-Assisted Intervention, MICCAI 2014 - 17th International Conference, Proceedings. PART 3 ed. Springer Verlag, p. 169-176 8 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 8675 LNCS, no. PART 3).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Big data in health care: Using analytics to identify and manage high-risk and high-cost patients

Bates, D. W., Saria, S., Ohno-Machado, L., Shah, A. & Escobar, G., 2014, In : Health Affairs. 33, 7, p. 1123-1131 9 p.

Research output: Contribution to journalArticle

Bioengineering paradigms for cell migration in confined microenvironments

Stroka, K. M., Gu, Z., Sun, S. X. & Konstantopoulos, K., Oct 2014, In : Current Opinion in Cell Biology. 30, 1, p. 41-50 10 p.

Research output: Contribution to journalReview article

Blind prediction of interfacial water positions in CAPRI

Lensink, M. F., Moal, I. H., Bates, P. A., Kastritis, P. L., Melquiond, A. S. J., Karaca, E., Schmitz, C., van Dijk, M., Bonvin, A. M. J. J., Eisenstein, M., Jiménez-García, B., Grosdidier, S., Solernou, A., Pérez-Cano, L., Pallara, C., Fernández-Recio, J., Xu, J., Muthu, P., Praneeth Kilambi, K., Gray, J. J. & 38 others, Grudinin, S., Derevyanko, G., Mitchell, J. C., Wieting, J., Kanamori, E., Tsuchiya, Y., Murakami, Y., Sarmiento, J., Standley, D. M., Shirota, M., Kinoshita, K., Nakamura, H., Chavent, M., Ritchie, D. W., Park, H., Ko, J., Lee, H., Seok, C., Shen, Y., Kozakov, D., Vajda, S., Kundrotas, P. J., Vakser, I. A., Pierce, B. G., Hwang, H., Vreven, T., Weng, Z., Buch, I., Farkash, E., Wolfson, H. J., Zacharias, M., Qin, S., Zhou, H. X., Huang, S. Y., Zou, X., Wojdyla, J. A., Kleanthous, C. & Wodak, S. J., Apr 2014, In : Proteins: Structure, Function and Bioinformatics. 82, 4, p. 620-632 13 p.

Research output: Contribution to journalArticle

Blind prediction performance of RosettaAntibody 3.0: Grafting, relaxation, kinematic loop modeling, and full CDR optimization

Weitzner, B. D., Kuroda, D., Marze, N., Xu, J. & Gray, J. J., Aug 2014, In : Proteins: Structure, Function and Bioinformatics. 82, 8, p. 1611-1623 13 p.

Research output: Contribution to journalArticle

Cadaveric feasibility study of da Vinci Si-assisted cochlear implant with augmented visual navigation for otologic surgery

Liu, W. P., Azizian, M., Sorger, J., Taylor, R. H., Reilly, B. K., Cleary, K. & Preciado, D., Mar 2014, In : JAMA Otolaryngology - Head and Neck Surgery. 140, 3, p. 208-214 7 p.

Research output: Contribution to journalArticle

Cell memory and adaptation in chemotaxis

Huang, C. H. & Iglesias, P. A., Oct 28 2014, In : Proceedings of the National Academy of Sciences of the United States of America. 111, 43, p. 15287-15288 2 p.

Research output: Contribution to journalComment/debate

Comparison of adaptation motifs: Temporal, stochastic and spatial responses

Iglesias, P. A. & Shi, C., Dec 1 2014, In : IET Systems Biology. 8, 6, p. 268-281 14 p.

Research output: Contribution to journalArticle

Concurrent photoacoustic markers for direct three-dimensional ultrasound to video registration

Cheng, A., Guo, X., Kang, H. J., Tavakoli, B., Kang, J. U., Taylor, R. H. & Boctor, E. M., Jan 1 2014, Photons Plus Ultrasound: Imaging and Sensing 2014. SPIE, 89435J. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 8943).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Control of the coupled motion of a 6 DoF robotic arm and a continuum manipulator for the treatment of pelvis osteolysis

Alambeigi, F., Murphy, R. J., Basafa, E., Taylor, R. H. & Armand, M., Nov 2 2014, 2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2014. Institute of Electrical and Electronics Engineers Inc., p. 6521-6525 5 p. 6945122. (2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2014).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Detecting occlusion inside a ventricular catheter using photoacoustic imaging through skull

Tavakoli, B., Guo, X., Taylor, R. H., Kang, J. U. & Boctor, E. M., Jan 1 2014, Photons Plus Ultrasound: Imaging and Sensing 2014. SPIE, 89434O. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 8943).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Determining functional units of tongue motion via graph-regularized sparse non-negative matrix factorization

Woo, J., Xing, F., Lee, J., Stone, M. & Prince, J. L., Jan 1 2014, Medical Image Computing and Computer-Assisted Intervention, MICCAI 2014 - 17th International Conference, Proceedings. PART 2 ed. Springer Verlag, p. 146-153 8 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 8674 LNCS, no. PART 2).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Development of a miniaturized 3-DOF force sensing instrument for robotically assisted retinal microsurgery and preliminary results

He, X., Gehlbach, P., Handa, J., Taylor, R. & Iordachita, I., Sep 30 2014, "2014 5th IEEE RAS and EMBS International Conference on Biomedical Robotics and Biomechatronics, BioRob 2014. Carloni, R., Masia, L., Sabater-Navarro, J. M., Ackermann, M., Agrawal, S., Ajoudani, A., Artemiadis, P., Bianchi, M., Lanari Bo, A. P., Casadio, M., Cleary, K., Deshpande, A., Formica, D., Fumagalli, M., Garcia-Aracil, N., Godfrey, S. B., Khalil, I. S. M., Lambercy, O., Loureiro, R. C. V., Mattos, L., Munoz, V., Park, H-S., Rodriguez Cheu, L. E., Saltaren, R., Siqueira, A. A. G., Squeri, V., Stienen, A. H. A., Tsagarakis, N., Van der Kooij, H., Vanderborght, B., Vitiello, N., Zariffa, J. & Zollo, L. (eds.). IEEE Computer Society, p. 252-258 7 p. 6913785. (Proceedings of the IEEE RAS and EMBS International Conference on Biomedical Robotics and Biomechatronics).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Effects of tools inserted through snake-like surgical manipulators

Murphy, R. J., Otake, Y., Wolfe, K. C., Taylor, R. H. & Armand, M., Nov 2 2014, 2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2014. Institute of Electrical and Electronics Engineers Inc., p. 6854-6858 5 p. 6945203. (2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2014).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Elastography using multi-stream GPU: An application to online tracked ultrasound elastography, in-vivo and the da Vinci surgical system

Deshmukh, N. P., Kang, H. J., Billings, S. D., Taylor, R. H., Hager, G. D. & Boctor, E. M., Dec 26 2014, In : PloS one. 9, 12, e115881.

Research output: Contribution to journalArticle

Evaluation of virtual fixtures for robot-assisted cochlear implant insertion

Wilkening, P., Chien, W., Gonenc, B., Niparko, J., Kang, J. U., Iordachita, I. & Taylor, R. H., Sep 30 2014, "2014 5th IEEE RAS and EMBS International Conference on Biomedical Robotics and Biomechatronics, BioRob 2014. Carloni, R., Masia, L., Sabater-Navarro, J. M., Ackermann, M., Agrawal, S., Ajoudani, A., Artemiadis, P., Bianchi, M., Lanari Bo, A. P., Casadio, M., Cleary, K., Deshpande, A., Formica, D., Fumagalli, M., Garcia-Aracil, N., Godfrey, S. B., Khalil, I. S. M., Lambercy, O., Loureiro, R. C. V., Mattos, L., Munoz, V., Park, H-S., Rodriguez Cheu, L. E., Saltaren, R., Siqueira, A. A. G., Squeri, V., Stienen, A. H. A., Tsagarakis, N., Van der Kooij, H., Vanderborght, B., Vitiello, N., Zariffa, J. & Zollo, L. (eds.). IEEE Computer Society, p. 332-338 7 p. 6913798. (Proceedings of the IEEE RAS and EMBS International Conference on Biomedical Robotics and Biomechatronics).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Example based lesion segmentation

Roy, S., He, Q., Carass, A., Jog, A., Cuzzocreo, J. L., Reich, D. S., Prince, J. & Pham, D., Jan 1 2014, Medical Imaging 2014: Image Processing. SPIE, 90341Y. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 9034).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Extreme deep white matter hyperintensity volumes are associated with African American race

Nyquist, P. A., Bilgel, M. S., Gottesman, R., Yanek, L. R., Moy, T. F., Becker, L. C., Cuzzocreo, J., Prince, J., Yousem, D. M., Becker, D. M., Kral, B. G. & Vaidya, D., Jun 2014, In : Cerebrovascular Diseases. 37, 4, p. 244-250 7 p.

Research output: Contribution to journalArticle

Force-sensing microneedle for assisted retinal vein cannulation

Gonenc, B., Taylor, R. H., Iordachita, I., Gehlbach, P. & Handa, J., Dec 12 2014, In : Proceedings of IEEE Sensors. 2014-December, December, p. 698-701 4 p., 6985095.

Research output: Contribution to journalConference article

Freehand spatial-angular compounding of photoacoustic images

Kang, H. J., Lediju Bell, M. A., Guo, X., Taylor, R. H. & Boctor, E. M., Jan 1 2014, Photons Plus Ultrasound: Imaging and Sensing 2014. SPIE, 894361. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 8943).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Frequency-domain analysis of tagged MRI and imaging strategies

Abd-Elmoniem, K. Z., Parthasarathy, V. & Prince, J. L., Jan 1 2014, Handbook of Imaging in Biological Mechanics. CRC Press, p. 23-32 10 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Fundus image mosaicking for information augmentation in computer-assisted slit-lamp imaging

Richa, R., Linhares, R., Comunello, E., Von Wangenheim, A., Schnitzler, J. Y., Wassmer, B., Guillemot, C., Thuret, G., Gain, P., Hager, G. & Taylor, R., Jun 2014, In : IEEE transactions on medical imaging. 33, 6, p. 1304-1312 9 p., 6754152.

Research output: Contribution to journalArticle

Guidance of a high dexterity robot under 3D ultrasound for minimally invasive retrieval of foreign bodies from a beating heart

Thienphrapa, P., Popovic, A. & Taylor, R. H., Sep 22 2014, In : Proceedings - IEEE International Conference on Robotics and Automation. p. 4869-4874 6 p., 6907572.

Research output: Contribution to journalConference article

Highly efficient macromolecule-sized poration of lipid bilayers by a synthetically evolved peptide

Wiedman, G., Fuselier, T., He, J., Searson, P. C., Hristova, K. & Wimley, W. C., Mar 26 2014, In : Journal of the American Chemical Society. 136, 12, p. 4724-4731 8 p.

Research output: Contribution to journalArticle

How IGF-1 activates its receptor

Kavran, J. M., McCabe, J. M., Byrne, P. O., Connacher, M. K., Wang, Z., Ramek, A., Sarabipour, S., Shan, Y., Shaw, D. E., Hristova, K., Cole, P. A. & Leahy, D. J., Sep 25 2014, In : eLife. 3, e03772.

Research output: Contribution to journalArticle

Human eye phantom for developing computer and robot-assisted epiretinal membrane peeling

Gupta, A., Gonenc, B., Balicki, M., Olds, K., Handa, J., Gehlbach, P., Taylor, R. H. & Iordachita, I., Nov 2 2014, 2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2014. Institute of Electrical and Electronics Engineers Inc., p. 6864-6867 4 p. 6945205. (2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2014).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Hypoxia and the extracellular matrix: Drivers of tumour metastasis

Gilkes, D. M., Semenza, G. L. & Wirtz, D., Jun 2014, In : Nature Reviews Cancer. 14, 6, p. 430-439 10 p.

Research output: Contribution to journalReview article

Hypoxia-inducible factors mediate coordinated RhoA-ROCK1 expression and signaling in breast cancer cells

Gilkes, D. M., Xiang, L., Lee, S. J., Chaturvedi, P., Hubbi, M. E., Wirtz, D. & Semenza, G. L., Jan 21 2014, In : Proceedings of the National Academy of Sciences of the United States of America. 111, 3, p. E384-E393

Research output: Contribution to journalArticle

Open Access

Improved measurement of brain deformation during mild head acceleration using a novel tagged MRI sequence

Knutsen, A. K., Magrath, E., McEntee, J. E., Xing, F., Prince, J. L., Bayly, P. V., Butman, J. A. & Pham, D. L., 2014, In : Journal of Biomechanics. 47, 14, p. 3475-3481 7 p.

Research output: Contribution to journalArticle

Improving magnetic resonance resolution with supervised learning

Jog, A., Carass, A. & Prince, J. L., Jul 29 2014, 2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014. Institute of Electrical and Electronics Engineers Inc., p. 987-990 4 p. 6868038. (2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Injection-depth-locking axial motion guided handheld micro-injector using CP-SSOCT

Cheon, G. W., Huang, Y., Kwag, H. R., Kim, K. Y., Taylor, R. H., Gehlbach, P. L. & Kang, J. U., Nov 2 2014, 2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2014. Institute of Electrical and Electronics Engineers Inc., p. 6163-6166 4 p. 6945036. (2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2014).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Interfacially active peptides and proteins

Wimley, W. C. & Hristova, K., Sep 2014, In : Biochimica et Biophysica Acta - Biomembranes. 1838, 9, 1 p.

Research output: Contribution to journalEditorial

Interleukin-1β and cyclic AMP mediate the invasion of sheared chondrosarcoma cells via a matrix metalloproteinase-1-dependent mechanism

Wang, P., Guan, P. P., Wang, T., Yu, X., Guo, J. J., Konstantopoulos, K. & Wang, Z. Y., May 1 2014, In : Biochimica et Biophysica Acta - Molecular Cell Research. 1843, 5, p. 923-933 11 p.

Research output: Contribution to journalArticle