Whiting School of Engineering

Research Output

2015

Interpretable exemplar-based shape classification using constrained sparse linear models

Sigurdsson, G. A., Yang, Z., Tran, T. D. & Prince, J. L., 2015, Medical Imaging 2015: Image Processing. Styner, M. A. & Ourselin, S. (eds.). SPIE, 94130R. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 9413).

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

Intraoperative image-guided transoral robotic surgery: Pre-clinical studies

Liu, W. P., Reaugamornrat, S., Sorger, J. M., Siewerdsen, J. H., Taylor, R. H. & Richmon, J. D., Jun 1 2015, In : International Journal of Medical Robotics and Computer Assisted Surgery. 11, 2, p. 256-267 12 p.

Research output: Contribution to journalArticle

IRIS: Integrated Robotic Intraocular Snake

He, X., Van Geirt, V., Gehlbach, P., Taylor, R. & Iordachita, I., Jun 29 2015, In : Proceedings - IEEE International Conference on Robotics and Automation. 2015-June, June, p. 1764-1769 6 p., 7139426.

Research output: Contribution to journalConference article

Iterative Most-Likely Point Registration (IMLP): A Robust Algorithm for Computing Optimal Shape Alignment

Billings, S. D., Boctor, E. M. & Taylor, R. H., Mar 6 2015, In : PloS one. 10, 3, e0117688.

Research output: Contribution to journalArticle

Iterative motion compensation approach for ultrasonic thermal imaging

Fleming, I., Hager, G., Guo, X., Kang, H. J. & Boctor, E., Jan 1 2015, Medical Imaging 2015: Ultrasonic Imaging and Tomography. Duric, N. & Bosch, J. G. (eds.). SPIE, 94190Z. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 9419).

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

Large deflection shape sensing of a continuum manipulator for minimally-invasive surgery

Liu, H., Farvardin, A., Pedram, S. A., Iordachita, I., Taylor, R. H. & Armand, M., Jun 29 2015, In : Proceedings - IEEE International Conference on Robotics and Automation. 2015-June, June, p. 201-206 6 p., 7139000.

Research output: Contribution to journalConference article

Learning a Severity Score for Sepsis: A Novel Approach based on Clinical Comparisons

Dyagilev, K. & Saria, S., Jan 1 2015, In : AMIA ... Annual Symposium proceedings. AMIA Symposium. 2015, p. 1890-1898 9 p.

Research output: Contribution to journalArticle

Longitudinal graph-based segmentation of macular OCT using fundus alignment

Lang, A., Carass, A., Al-Louzi, O., Bhargava, P., Ying, H., Calabresi, P. A. & Prince, J. L., Jan 1 2015, Medical Imaging 2015: Image Processing. Styner, M. A. & Ourselin, S. (eds.). SPIE, 94130M. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 9413).

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

Longitudinal patch-based segmentation of multiple sclerosis white matter lesions

Roy, S., Carass, A., Prince, J. L. & Pham, D. L., Jan 1 2015, Machine Learning in Medical Imaging - 6th International Workshop, MLMI 2015 Held in Conjunction with MICCAI 2015, Proceedings. Zhou, L., Shi, Y., Wang, L. & Wang, Q. (eds.). Springer Verlag, p. 194-202 9 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 9352).

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

Loss of giant obscurins from breast epithelium promotes epithelial-to-mesenchymal transition, tumorigenicity and metastasis

Shriver, M., Stroka, K. M., Vitolo, M. I., Martin, S., Huso, D. L., Konstantopoulos, K. & Kontrogianni-Konstantopoulos, A., Aug 6 2015, In : Oncogene. 34, 32, p. 4248-4259 12 p.

Research output: Contribution to journalArticle

Modular interoperability in surgical robotics software

Kazanzides, P., Deguet, A., Vagvolgyi, B., Chen, Z. & Taylor, R. H., Sep 2015, Mechanical Engineering, 137, 9, p. 19-22 4 p.

Research output: Contribution to specialist publicationArticle

Open Access

Molecular Determinants for Protein Stabilization by Insertional Fusion to a Thermophilic Host Protein

Pierre, B., Labonte, J. W., Xiong, T., Aoraha, E., Williams, A., Shah, V., Chau, E., Helal, K. Y., Gray, J. J. & Kim, J. R., Nov 1 2015, In : ChemBioChem. 16, 16, p. 2392-2402 11 p.

Research output: Contribution to journalArticle

MR image synthesis by contrast learning on neighborhood ensembles

Jog, A., Carass, A., Roy, S., Pham, D. L. & Prince, J. L., Aug 1 2015, In : Medical image analysis. 24, 1, p. 63-76 14 p.

Research output: Contribution to journalArticle

Multimodal registration via mutual information incorporating geometric and spatial context

Woo, J., Stone, M. & Prince, J. L., Feb 1 2015, In : IEEE Transactions on Image Processing. 24, 2, p. 757-759 3 p., 7000562.

Research output: Contribution to journalArticle

Multi-output decision trees for lesion segmentation in multiple sclerosis

Jog, A., Carass, A., Pham, D. L. & Prince, J. L., Jan 1 2015, Medical Imaging 2015: Image Processing. Styner, M. A. & Ourselin, S. (eds.). SPIE, 94131C. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 9413).

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

Multiple-object geometric deformable model for segmentation of macular OCT: Errata

Carass, A., Lang, A., Hauser, M., Calabresi, P. A., Ying, H. S. & Prince, J. L., Jan 1 2015, In : Biomedical Optics Express. 6, 4, p. 1351-1352 2 p., A022.

Research output: Contribution to journalArticle

Multiple scale model for cell migration in monolayers: Elastic mismatch between cells enhances motility

Palmieri, B., Bresler, Y., Wirtz, D. & Grant, M., Jul 2 2015, In : Scientific reports. 5, 11745.

Research output: Contribution to journalArticle

Normal mammary epithelial cells promote carcinoma basement membrane invasion by inducing microtubule-rich protrusions

Lee, M. H., Wu, P. H., Gilkes, D., Aifuwa, I. & Wirtz, D., Jan 1 2015, In : Oncotarget. 6, 32, p. 32634-32645 12 p.

Research output: Contribution to journalArticle

Novel protein Callipygian defines the back of migrating cells

Swaney, K. F., Borleis, J., Iglesias, P. A. & Devreotes, P. N., Jul 21 2015, In : Proceedings of the National Academy of Sciences of the United States of America. 112, 29, p. E3845-E3854

Research output: Contribution to journalArticle

Of rafts and lipid chain lengths

Hristova, K. & Hinderliter, A., May 5 2015, In : Biophysical journal. 108, 9, 1 p.

Research output: Contribution to journalShort survey

Optical coherence tomography reflects brain atrophy in multiple sclerosis: A four-year study

Saidha, S., Al-Louzi, O., Ratchford, J. N., Bhargava, P., Oh, J., Newsome, S. D., Prince, J. L., Pham, D., Roy, S., Van Zijl, P., Balcer, L. J., Frohman, E. M., Reich, D. S., Crainiceanu, C. & Calabresi, P. A., Nov 2015, In : Annals of neurology. 78, 5, p. 801-813 13 p.

Research output: Contribution to journalArticle

Polyester: Simulating RNA-seq datasets with differential transcript expression

Frazee, A. C., Jaffe, A. E., Langmead, B. & Leek, J. T., Feb 6 2015, In : Bioinformatics. 31, 17, p. 2778-2784 7 p.

Research output: Contribution to journalArticle

Probabilistic fiber tracking using a modified Lasso bootstrap method

Ye, C., Glaister, J. & Prince, J. L., Jul 21 2015, 2015 IEEE 12th International Symposium on Biomedical Imaging, ISBI 2015. IEEE Computer Society, p. 943-946 4 p. 7164026. (Proceedings - International Symposium on Biomedical Imaging; vol. 2015-July).

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

Realistic Analytical Polyhedral MRI Phantoms

Ngo, T. M., Fung, G. S. K., Han, S., Chen, M., Prince, J. L., Tsui, B., Mcveigh, E. R. & Herzka, D., 2015, (Accepted/In press) In : Magnetic Resonance in Medicine.

Research output: Contribution to journalArticle

Relating speech production to tongue muscle compressions using tagged and high-resolution magnetic resonance imaging

Xing, F., Ye, C., Woo, J., Stone, M. & Prince, J., Jan 1 2015, Medical Imaging 2015: Image Processing. Styner, M. A. & Ourselin, S. (eds.). SPIE, 94131L. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 9413).

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

Relationships between quantitative spinal cord MRI and retinal layers in multiple sclerosis

Oh, J., Sotirchos, E. S., Saidha, S., Whetstone, A., Chen, M., Newsome, S. D., Zackowski, K. M., Balcer, L. J., Frohman, E., Prince, J., Diener-West, M., Reich, D. S. & Calabresi, P. A., Feb 17 2015, In : Neurology. 84, 7, p. 720-728 9 p.

Research output: Contribution to journalArticle

Rendering-based video-CT registration with physical constraints for image-guided endoscopic sinus surgery

Otake, Y., Leonard, S., Reiter, A., Rajan, P., Siewerdsen, J. H., Ishii, M., Taylor, R. H. & Hager, G. D., Jan 1 2015, Medical Imaging 2015: Image-Guided Procedures, Robotic Interventions, and Modeling. Webster, R. J. & Yaniv, Z. R. (eds.). SPIE, 94150A. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 9415).

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

Segmentation of microcystic macular edema in Cirrus OCT scans with an exploratory longitudinal study

Swingle, E. K., Lang, A., Carass, A., Al-Louzi, O., Saidha, S., Prince, J. L. & Calabresi, P. A., Jan 1 2015, Medical Imaging 2015: Biomedical Applications in Molecular, Structural, and Functional Imaging. Gimi, B. & Molthen, R. C. (eds.). SPIE, 94170P. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 9417).

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

Segmentation of tongue muscles from super-resolution magnetic resonance images

Ibragimov, B., Prince, J. L., Murano, E. Z., Woo, J., Stone, M., Likar, B., Pernuš, F. & Vrtovec, T., Feb 1 2015, In : Medical image analysis. 20, 1, p. 198-207 10 p.

Research output: Contribution to journalArticle

Senescent stromal cells induce cancer cell migration via inhibition of RhoA/ROCK/myosin-based cell contractility

Aifuwa, I., Giri, A., Longe, N., Lee, S. H., An, S. S. & Wirtz, D., 2015, In : Oncotarget. 6, 31, p. 30516-30531 16 p.

Research output: Contribution to journalArticle

Shape Tracking of a Dexterous Continuum Manipulator Utilizing Two Large Deflection Shape Sensors

Liu, H., Farvardin, A., Grupp, R., Murphy, R. J., Taylor, R. H., Iordachita, I. & Armand, M., Oct 1 2015, In : IEEE Sensors Journal. 15, 10, p. 5494-5503 10 p., 7118633.

Research output: Contribution to journalArticle

Smooth extrapolation of unknown anatomy via statistical shape models

Grupp, R. B., Chiang, H., Otake, Y., Murphy, R. J., Gordon, C. R., Armand, M. & Taylor, R. H., Jan 1 2015, Medical Imaging 2015: Image-Guided Procedures, Robotic Interventions, and Modeling. Webster, R. J. & Yaniv, Z. R. (eds.). SPIE, 941524. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 9415).

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

Statistical analysis of cell migration in 3D using the anisotropic persistent random walk model

Wu, P. H., Giri, A. & Wirtz, D., Mar 2 2015, In : Nature protocols. 10, 3, p. 517-527 11 p.

Research output: Contribution to journalArticle

Subject-Specific Sparse Dictionary Learning for Atlas-Based Brain MRI Segmentation

Roy, S., He, Q., Sweeney, E., Carass, A., Reich, D. S., Prince, J. L. & Pham, D. L., Sep 1 2015, In : IEEE Journal of Biomedical and Health Informatics. 19, 5, p. 1598-1609 12 p., 7114201.

Research output: Contribution to journalArticle

Subtyping: What It is and Its Role in Precision Medicine

Saria, S. & Goldenberg, A., Jul 1 2015, In : IEEE Intelligent Systems. 30, 4, p. 70-75 6 p., 7156005.

Research output: Contribution to journalArticle

Surgical performance assessment

Kumar, S., Ahmidi, N., Hager, G., Singhal, P., Corso, J. & Krovi, V., Sep 2015, Mechanical Engineering, 137, 9, p. 7-10 4 p.

Research output: Contribution to specialist publicationArticle

Open Access

Testing the limits of rational design by engineering pH sensitivity into membrane-active peptides

Wiedman, G., Wimley, W. C. & Hristova, K., Apr 2015, In : Biochimica et Biophysica Acta - Biomembranes. 1848, 4, p. 951-957 7 p.

Research output: Contribution to journalArticle

The Mechanobiology of Aging

Phillip, J. M., Aifuwa, I., Walston, J. & Wirtz, D., Dec 7 2015, In : Annual Review of Biomedical Engineering. 17, p. 113-141 29 p.

Research output: Contribution to journalReview article

The origin of CDR H3 structural diversity

Weitzner, B. D., Dunbrack, R. L. & Gray, J. J., Feb 3 2015, In : Structure. 23, 2, p. 302-311 10 p.

Research output: Contribution to journalArticle

The role of cyclooxygenase-2, interleukin-1β and fibroblast growth factor-2 in the activation of matrix metalloproteinase-1 in sheared-chondrocytes and articular cartilage

Guan, P. P., Guo, J. W., Yu, X., Wang, Y., Wang, T., Konstantopoulos, K., Wang, Z. Y. & Wang, P., May 20 2015, In : Scientific reports. 5, 10412.

Research output: Contribution to journalArticle

Three-dimensional matrix fiber alignment modulates cell migration and MT1-MMP utility by spatially and temporally directing protrusions

Fraley, S. I., Wu, P. H., He, L., Feng, Y., Krisnamurthy, R., Longmore, G. D. & Wirtz, D., Oct 1 2015, In : Scientific reports. 5, 14580.

Research output: Contribution to journalArticle

Tree-Encoded Conditional Random Fields for Image Synthesis

Jog, A., Carass, A., Pham, D. L. & Prince, J. L., 2015, In : Information processing in medical imaging : proceedings of the ... conference. 24, p. 733-745 13 p.

Research output: Contribution to journalArticle

T-wave morphology depends on transmural heterogeneity in a high-resolution human left-ventricular wedge model

Rivolta, M. W., Bevan, G. H., Gurev, V., Rice, J. J., Lopes, C. M. & Couderc, J. P., Feb 16 2015, Computing in Cardiology Conference 2015, CinC 2015. Murray, A. (ed.). IEEE Computer Society, p. 433-436 4 p. 7408679. (Computing in Cardiology; vol. 42).

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

Understanding the limits of animal models as predictors of human biology: Lessons learned from the sbv IMPROVER Species Translation Challenge

Rhrissorrakrai, K., Belcastro, V., Bilal, E., Norel, R., Poussin, C., Mathis, C., Dulize, R. H. J., Ivanov, N. V., Alexopoulos, L., Jeremy Rice, J., Peitsch, M. C., Stolovitzky, G., Meyer, P. & Hoeng, J., Feb 15 2015, In : Bioinformatics. 31, 4, p. 471-483 13 p.

Research output: Contribution to journalArticle

Unliganded EphA3 dimerization promoted by the SAM domain

Singh, D. R., Cao, Q. Q., King, C., Salotto, M., Ahmed, F., Zhou, X. Y., Pasquale, E. B. & Hristova, K., Oct 1 2015, In : Biochemical Journal. 471, 1, p. 101-109 9 p.

Research output: Contribution to journalArticle

Using image synthesis for multi-channel registration of different image modalities

Chen, M., Jog, A., Carass, A. & Prince, J. L., Jan 1 2015, Medical Imaging 2015: Image Processing. Styner, M. A. & Ourselin, S. (eds.). SPIE, 94131Q. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 9413).

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

Volume regulation and shape bifurcation in the cell nucleus

Kim, D. H., Li, B., Si, F., Phillip, J. M., Wirtz, D. & Sun, S. X., 2015, In : Journal of cell science. 128, 18, p. 3375-3385 11 p.

Research output: Contribution to journalArticle