Whiting School of Engineering

Research Output

Filter
Article
2020

Alterations in the retinal vasculature occur in multiple sclerosis and exhibit novel correlations with disability and visual function measures

Murphy, O. C., Kwakyi, O., Iftikhar, M., Zafar, S., Lambe, J., Pellegrini, N., Sotirchos, E. S., Gonzalez-Caldito, N., Ogbuokiri, E., Filippatou, A., Risher, H., Cowley, N., Feldman, S., Fioravante, N., Frohman, E. M., Frohman, T. C., Balcer, L. J., Prince, J. L., Channa, R., Calabresi, P. A. & 1 others, Saidha, S., Jun 1 2020, In : Multiple Sclerosis Journal. 26, 7, p. 815-828 14 p.

Research output: Contribution to journalArticle

A Mosquito Pick-and-Place System for PfSPZ-Based Malaria Vaccine Production

Phalen, H., Vagdargi, P., Schrum, M. L., Chakravarty, S., Canezin, A., Pozin, M., Coemert, S., Iordachita, I., Hoffman, S. L., Chirikjian, G. S. & Taylor, R. H., Jan 1 2020, (Accepted/In press) In : IEEE Transactions on Automation Science and Engineering.

Research output: Contribution to journalArticle

A multi-camera, multi-view system for training and skill assessment for robot-assisted surgery

Abdelaal, A. E., Avinash, A., Kalia, M., Hager, G. D. & Salcudean, S. E., Jan 1 2020, (Accepted/In press) In : International Journal of Computer Assisted Radiology and Surgery.

Research output: Contribution to journalArticle

Analysis of fiber strain in the human tongue during speech

Gomez, A. D., Stone, M. L., Woo, J., Xing, F. & Prince, J. L., Jan 1 2020, (Accepted/In press) In : Computer Methods in Biomechanics and Biomedical Engineering.

Research output: Contribution to journalArticle

Automated detection & classification of knee arthroplasty using deep learning

Yi, P. H., Wei, J., Kim, T. K., Sair, H. I., Hui, F. K., Hager, G. D., Fritz, J. & Oni, J. K., Mar 2020, In : Knee. 27, 2, p. 535-542 8 p.

Research output: Contribution to journalArticle

Automatic annotation of hip anatomy in fluoroscopy for robust and efficient 2D/3D registration

Grupp, R. B., Unberath, M., Gao, C., Hegeman, R. A., Murphy, R. J., Alexander, C. P., Otake, Y., McArthur, B. A., Armand, M. & Taylor, R. H., May 1 2020, In : International Journal of Computer Assisted Radiology and Surgery. 15, 5, p. 759-769 11 p.

Research output: Contribution to journalArticle

Cancer cells display increased migration and deformability in pace with metastatic progression

Liu, Z., Lee, S. J., Park, S., Konstantopoulos, K., Glunde, K., Chen, Y. & Barman, I., Jan 1 2020, (Accepted/In press) In : FASEB Journal.

Research output: Contribution to journalArticle

Dense Depth Estimation in Monocular Endoscopy with Self-Supervised Learning Methods

Liu, X., Sinha, A., Ishii, M., Hager, G. D., Reiter, A., Taylor, R. H. & Unberath, M., May 2020, In : IEEE transactions on medical imaging. 39, 5, p. 1438-1447 10 p., 8889760.

Research output: Contribution to journalArticle

Dynamic organelle distribution initiates actin-based spindle migration in mouse oocytes

Duan, X., Li, Y., Yi, K., Guo, F., Wang, H. Y., Wu, P. H., Yang, J., Mair, D. B., Morales, E. A., Kalab, P., Wirtz, D., Sun, S. X. & Li, R., Dec 1 2020, In : Nature communications. 11, 1, 277.

Research output: Contribution to journalArticle

Open Access

Effect of disease-modifying therapies on subcortical gray matter atrophy in multiple sclerosis

Sotirchos, E. S., Gonzalez-Caldito, N., Dewey, B. E., Fitzgerald, K. C., Glaister, J., Filippatou, A., Ogbuokiri, E., Feldman, S., Kwakyi, O., Risher, H., Crainiceanu, C., Pham, D., Van Zijl, P. C., Mowry, E. M., Reich, D. S., Prince, J. L., Calabresi, P. A. & Saidha, S., Mar 1 2020, In : Multiple Sclerosis Journal. 26, 3, p. 312-321 10 p.

Research output: Contribution to journalArticle

Open Access

Five-year longitudinal changes in quantitative spinal cord MRI in multiple sclerosis

Oh, J., Chen, M., Cybulsky, K., Suthiphosuwan, S., Seyman, E., Dewey, B., Diener-West, M., van Zijl, P., Prince, J., Reich, D. S. & Calabresi, P. A., Jan 1 2020, (Accepted/In press) In : Multiple Sclerosis Journal.

Research output: Contribution to journalArticle

From development to deployment: dataset shift, causality, and shift-stable models in health AI

Subbaswamy, A. & Saria, S., Apr 1 2020, In : Biostatistics (Oxford, England). 21, 2, p. 345-352 8 p.

Research output: Contribution to journalArticle

Inactivation of Arid1a in the endometrium is associated with endometrioid tumorigenesis through transcriptional reprogramming

Suryo Rahmanto, Y., Shen, W., Shi, X., Chen, X., Yu, Y., Yu, Z. C., Miyamoto, T., Lee, M. H., Singh, V., Asaka, R., Shimberg, G., Vitolo, M. I., Martin, S. S., Wirtz, D., Drapkin, R., Xuan, J., Wang, T. L. & Shih, I. M., Dec 1 2020, In : Nature communications. 11, 1, 2717.

Research output: Contribution to journalArticle

Open Access

Particle tracking microrheology of cancer cells in living subjects

Wu, P. H., Gambhir, S. S., Hale, C. M., Chen, W. C., Wirtz, D. & Smith, B. R., Jan 1 2020, (Accepted/In press) In : Materials Today.

Research output: Contribution to journalArticle

Protein Structure Prediction and Design in a Biologically Realistic Implicit Membrane

Alford, R. F., Fleming, P. J., Fleming, K. G. & Gray, J. J., Apr 21 2020, In : Biophysical journal. 118, 8, p. 2042-2055 14 p.

Research output: Contribution to journalArticle

Retinal pathology occurs in stiff-person syndrome

Lambe, J., Rothman, A., Prince, J., Saidha, S., Calabresi, P. A. & Newsome, S. D., May 19 2020, In : Neurology. 94, 20, p. e2126-e2131

Research output: Contribution to journalArticle

Revisiting a controversy: The effect of EGF on EGFR dimer stability

Singh, D. R., King, C., Salotto, M. & Hristova, K., Jan 1 2020, In : Biochimica et Biophysica Acta - Biomembranes. 1862, 1, 183015.

Research output: Contribution to journalArticle

SCADE: Simultaneous Sensor Calibration and Deformation Estimation of FBG-Equipped Unmodeled Continuum Manipulators

Alambeigi, F., Aghajani Pedram, S., Speyer, J. L., Rosen, J., Iordachita, I., Taylor, R. H. & Armand, M., Feb 2020, In : IEEE Transactions on Robotics. 36, 1, p. 222-239 18 p., 8886726.

Research output: Contribution to journalArticle

Single-cell morphology encodes metastatic potential

Wu, P. H., Gilkes, D. M., Phillip, J. M., Narkar, A., Cheng, T. W. T., Marchand, J., Lee, M. H., Li, R. & Wirtz, D., Jan 22 2020, In : Science Advances. 6, 4, eaaw6938.

Research output: Contribution to journalArticle

Open Access

Spatial Radiation Dose Influence on Xerostomia Recovery and Its Comparison to Acute Incidence in Patients With Head and Neck Cancer

Guo, Y., Jiang, W., Lakshminarayanan, P., Han, P., Cheng, Z., Bowers, M., Hui, X., Shpitser, I., Siddiqui, S., Taylor, R. H., Quon, H. & McNutt, T., Mar 1 2020, In : Advances in Radiation Oncology. 5, 2, p. 221-230 10 p.

Research output: Contribution to journalArticle

Open Access

Supramolecular Design of Unsymmetric Reverse Bolaamphiphiles for Cell-Sensitive Hydrogel Degradation and Drug Release

Chakroun, R. W., Sneider, A., Anderson, C. F., Wang, F., Wu, P. H., Wirtz, D. & Cui, H., Jan 1 2020, (Accepted/In press) In : Angewandte Chemie - International Edition.

Research output: Contribution to journalArticle

Three-dimensional visualization of cleared human pancreas cancer reveals that sustained epithelial-to-mesenchymal transition is not required for venous invasion

Hong, S. M., Jung, D. J., Kiemen, A., Gaida, M. M., Yoshizawa, T., Braxton, A. M., Noë, M., Lionheart, G., Oshima, K., Thompson, E. D., Burkhart, R., Wu, P. H., Wirtz, D., Hruban, R. H. & Wood, L. D., Apr 1 2020, In : Modern Pathology. 33, 4, p. 639-647 9 p.

Research output: Contribution to journalArticle

TrkA overexpression in non-tumorigenic human breast cell lines confers oncogenic and metastatic properties

Kyker-Snowman, K., Hughes, R. M., Yankaskas, C. L., Cravero, K., Karthikeyan, S., Button, B., Waters, I., Rosen, D. M., Dennison, L., Hunter, N., Donaldson, J., Christenson, E. S., Konstantopoulos, K., Hurley, P. J., Croessmann, S. & Park, B. H., Feb 1 2020, In : Breast Cancer Research and Treatment. 179, 3, p. 631-642 12 p.

Research output: Contribution to journalArticle

2019

2019 data fusion contest

Le Saux, B., Yokoya, N., Hansch, R., Brown, M. & Hager, G., Mar 1 2019, IEEE Geoscience and Remote Sensing Magazine, 7, 1, p. 103-105 3 p.

Research output: Contribution to specialist publicationArticle

A 3D Computational Head Model Under Dynamic Head Rotation and Head Extension Validated Using Live Human Brain Data, Including the Falx and the Tentorium

Lu, Y. C., Daphalapurkar, N. P., Knutsen, A. K., Glaister, J., Pham, D. L., Butman, J. A., Prince, J. L., Bayly, P. V. & Ramesh, K. T., Jan 1 2019, In : Annals of biomedical engineering.

Research output: Contribution to journalArticle

A direct podocalyxin–dynamin-2 interaction regulates cytoskeletal dynamics to promote migration and metastasis in pancreatic cancer cells

Wong, B. S., Shea, D. J., Mistriotis, P., Tuntithavornwat, S., Law, R. A., Bieber, J. M., Zheng, L. & Konstantopoulos, K., Jun 1 2019, In : Cancer Research. 79, 11, p. 2878-2891 14 p.

Research output: Contribution to journalArticle

A humanized yeast system to analyze cleavage of prelamin A by ZMPSTE24

Spear, E., Alford, R. F., Babatz, T. D., Wood, K. M., Mossberg, O. W., Odinammadu, K., Shilagardi, K., Gray, J. J. & Michaelis, S. D., Jan 1 2019, (Accepted/In press) In : Methods.

Research output: Contribution to journalArticle

A microfluidic assay for the quantification of the metastatic propensity of breast cancer specimens

Yankaskas, C. L., Thompson, K. N., Paul, C. D., Vitolo, M. I., Mistriotis, P., Mahendra, A., Bajpai, V. K., Shea, D. J., Manto, K. M., Chai, A. C., Varadarajan, N., Kontrogianni-Konstantopoulos, A., Martin, S. S. & Konstantopoulos, K., Jan 1 2019, In : Nature biomedical engineering.

Research output: Contribution to journalArticle

Applications of a deep learning method for anti-aliasing and super-resolution in MRI

Zhao, C., Shao, M., Carass, A., Li, H., Dewey, B. E., Ellingsen, L. M., Woo, J., Guttman, M. A., Blitz, A. M., Stone, M., Calabresi, P. A., Halperin, H. & Prince, J. L., Dec 2019, In : Magnetic Resonance Imaging. 64, p. 132-141 10 p.

Research output: Contribution to journalArticle

Applied Force during Piston Prosthesis Placement in a 3D-Printed Model: Freehand vs Robot-Assisted Techniques

Razavi, C. R., Wilkening, P. R., Yin, R., Lamaison, N., Taylor, R. H., Carey, J. P. & Creighton, F., Feb 1 2019, In : Otolaryngology - Head and Neck Surgery (United States). 160, 2, p. 320-325 6 p.

Research output: Contribution to journalArticle

Aquaporin-4 IgG seropositivity is associated with worse visual outcomes after optic neuritis than MOG-IgG seropositivity and multiple sclerosis, independent of macular ganglion cell layer thinning

Sotirchos, E. S., Filippatou, A., Fitzgerald, K. C., Salama, S., Pardo, S., Wang, J., Ogbuokiri, E., Cowley, N. J., Pellegrini, N., Murphy, O. C., Mealy, M. A., Prince, J. L., Levy, M., Calabresi, P. A. & Saidha, S., Jan 1 2019, (Accepted/In press) In : Multiple Sclerosis Journal.

Research output: Contribution to journalArticle

A sparse non-negative matrix factorization framework for identifying functional units of tongue behavior from MRI

Woo, J., Prince, J. L., Stone, M., Xing, F., Gomez, A. D., Green, J. R., Hartnick, C. J., Brady, T. J., Reese, T. G., Wedeen, V. J. & El Fakhri, G., Mar 2019, In : IEEE transactions on medical imaging. 38, 3, p. 730-740 11 p., 8467354.

Research output: Contribution to journalArticle

Assessment of Automated Identification of Phases in Videos of Cataract Surgery Using Machine Learning and Deep Learning Techniques

Yu, F., Silva Croso, G., Kim, T. S., Song, Z., Parker, F., Hager, G., Reiter, A., Vedula, S. S., Ali, H. & Sikder, S., Apr 5 2019, In : JAMA network open. 2, 4, p. e191860

Research output: Contribution to journalArticle

Association between Surgical Trainee Daytime Sleepiness and Intraoperative Technical Skill When Performing Septoplasty

Tseng, Y. W., Vedula, S. S., Malpani, A., Ahmidi, N., Boahene, K. D. O., Papel, I. D., Kontis, T. C., Maxwell, J., Wanamaker, J. R., Byrne, P. J., Malekzadeh, S., Hager, G. D., Ishii, L. E. & Ishii, M., Mar 1 2019, In : JAMA Facial Plastic Surgery. 21, 2, p. 104-109 6 p.

Research output: Contribution to journalArticle

Atlas-based tongue muscle correlation analysis from tagged and high- resolution magnetic resonance imaging

Xing, F., Stone, M., Goldsmith, T., Prince, J. L., Fakhri, G. E. & Woo, J., Jul 2019, In : Journal of Speech, Language, and Hearing Research. 62, 7, p. 2258-2269 12 p.

Research output: Contribution to journalArticle

Automated semantic labeling of pediatric musculoskeletal radiographs using deep learning

Yi, P. H., Kim, T. K., Wei, J., Shin, J., Hui, F., Sair, H., Hager, G. & Fritz, J., Jan 1 2019, In : Pediatric radiology.

Research output: Contribution to journalArticle

Brain ventricle parcellation using a deep neural network: Application to patients with ventriculomegaly

Shao, M., Han, S., Carass, A., Li, X., Blitz, A. M., Shin, J., Prince, J. L. & Ellingsen, L. M., Jan 1 2019, In : NeuroImage: Clinical. 23, 101871.

Research output: Contribution to journalArticle

Open Access

Caulobacter crescentus Hfq structure reveals a conserved mechanism of RNA annealing regulation

Santiago-Frangos, A., Fröhlich, K. S., Jeliazkov, J. R., Małecka, E. M., Marino, G., Gray, J. J., Luisi, B. F., Woodson, S. & Hardwick, S. W., May 28 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 166, 22, p. 10978-10987 10 p.

Research output: Contribution to journalArticle

Open Access

Cell sensing and decision-making in confinement: The role of TRPM7 in a tug of war between hydraulic pressure and cross-sectional area

Zhao, R., Afthinos, A., Zhu, T., Mistriotis, P., Li, Y., Serra, S. A., Zhang, Y., Yankaskas, C. L., He, S., Valverde, M. A., Sun, S. X. & Konstantopoulos, K., Jul 24 2019, In : Science Advances. 5, 7, eaaw7243.

Research output: Contribution to journalArticle

Open Access

Comparison of automated activity recognition to provider observations of patient mobility in the ICU

Rawat, N., Rao, V., Peven, M., Shrock, C., Reiter, A., Saria, S. & Ali, H., Jan 1 2019, In : Critical care medicine. 47, 9, p. 1232-1234 3 p.

Research output: Contribution to journalArticle

Computer-based engineering of thermostabilized antibody fragments

Lee, J., Der, B. S., Karamitros, C. S., Li, W., Marshall, N. M., Lungu, O. I., Miklos, A. E., Xu, J., Kang, T. H., Lee, C. H., Tan, B., Hughes, R. A., Jung, S. T., Ippolito, G. C., Gray, J. J., Zhang, Y., Kuhlman, B., Georgiou, G. & Ellington, A. D., Jan 1 2019, (Accepted/In press) In : AIChE Journal. e16864.

Research output: Contribution to journalArticle

Confinement hinders motility by inducing RhoA-mediated nuclear influx, volume expansion, and blebbing

Mistriotis, P., Wisniewski, E. O., Bera, K., Keys, J., Li, Y., Tuntithavornwat, S., Law, R. A., Perez-Gonzalez, N. A., Erdogmus, E., Zhang, Y., Zhao, R., Sun, S. X., Kalab, P., Lammerding, J. & Konstantopoulos, K., Dec 2 2019, In : Journal of Cell Biology. 218, 12, p. 4093-4111 19 p.

Research output: Contribution to journalArticle

Open Access

DeepHarmony: A deep learning approach to contrast harmonization across scanner changes

Dewey, B. E., Zhao, C., Reinhold, J. C., Carass, A., Fitzgerald, K. C., Sotirchos, E. S., Saidha, S., Oh, J., Pham, D. L., Calabresi, P. A., van Zijl, P. C. M. & Prince, J. L., Dec 2019, In : Magnetic Resonance Imaging. 64, p. 160-170 11 p.

Research output: Contribution to journalArticle

Deep-Learning-Based Semantic Labeling for 2D Mammography and Comparison of Complexity for Machine Learning Tasks

Yi, P. H., Lin, A., Wei, J., Yu, A. C., Sair, H. I., Hui, F. K., Hager, G. D. & Harvey, S. C., Aug 15 2019, In : Journal of Digital Imaging. 32, 4, p. 565-570 6 p.

Research output: Contribution to journalArticle

Open Access

Deep learning based topology guaranteed surface and MME segmentation of multiple sclerosis subjects from retinal OCT

He, Y., Carass, A., Liu, Y., Jedynak, B. M., Solomon, S. D., Saidha, S., Calabresi, P. A. & Prince, J. L., Oct 1 2019, In : Biomedical Optics Express. 10, 10, p. 5042-5058 17 p.

Research output: Contribution to journalArticle

Deep Learning Method for Automated Classification of Anteroposterior and Posteroanterior Chest Radiographs

Kim, T. K., Yi, P. H., Wei, J., Shin, J. W., Hager, G., Hui, F. K., Sair, H. I. & Lin, C. T., Dec 1 2019, In : Journal of Digital Imaging. 32, 6, p. 925-930 6 p.

Research output: Contribution to journalArticle

Differentiating post-cancer from healthy tongue muscle coordination patterns during speech using deep learning

Woo, J., Xing, F., Prince, J. L., Stone, M., Green, J. R., Goldsmith, T., Reese, T. G., Wedeen, V. J. & El Fakhri, G., May 1 2019, In : Journal of the Acoustical Society of America. 145, 5, p. EL423-EL429

Research output: Contribution to journalArticle

Open Access

Do no harm: a roadmap for responsible machine learning for health care

Wiens, J., Saria, S., Sendak, M., Ghassemi, M., Liu, V. X., Doshi-Velez, F., Jung, K., Heller, K., Kale, D., Saeed, M., Ossorio, P. N., Thadaney-Israni, S. & Goldenberg, A., Jan 1 2019, (Accepted/In press) In : Nature medicine.

Research output: Contribution to journalArticle

Open Access