Whiting School of Engineering

Research Output 1966 2019

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

multisensor fusion
Data fusion

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

Brain
Magnetic resonance
Anisotropy
Tissue

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

Pancreatic Neoplasms
Neoplasm Metastasis
Dynamin II
Microtubules
Focal Adhesions

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

Yeast
Yeasts
Processing
Lamin Type A
Aging of materials

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. & 1 others, Saidha, S., Jan 1 2019, In : Multiple Sclerosis Journal.

Research output: Contribution to journalArticle

Multiple Sclerosis
Blood Vessels
Neuritis
Retinal Vessels
Optic Neuritis

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

Microfluidics
Assays
Cells
Breast Neoplasms
Neoplasm Metastasis

An Individualized, Data-Driven Digital Approach for Precision Behavior Change

Wongvibulsin, S., Martin, S., Saria, S., Zeger, S. & Murphy, S. A., Jan 1 2019, In : American Journal of Lifestyle Medicine.

Research output: Contribution to journalReview article

Chronic Disease
Health Behavior
Technology
Delivery of Health Care
Health

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., Jan 1 2019, In : Magnetic Resonance Imaging.

Research output: Contribution to journalArticle

Anti-aliasing
Magnetic resonance
Magnetic resonance imaging
Magnetic Resonance Spectroscopy
Learning

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

Robotics
Prostheses and Implants
Incus
Microsurgery
Stapes

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

Aquaporin 4
Optic Neuritis
Ganglia
Multiple Sclerosis
Myelin-Oligodendrocyte Glycoprotein

Artificial intelligence to diagnose ischemic stroke and identify large vessel occlusions: A systematic review

Murray, N. M., Unberath, M., Hager, G. & Hui, F., Jan 1 2019, (Accepted/In press) In : Journal of neurointerventional surgery.

Research output: Contribution to journalReview article

Artificial Intelligence
Stroke
Learning
Thrombectomy
Alberta

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

Cataract
Learning
ROC Curve
Ophthalmology
Internship and Residency

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

Atlases
Tongue
Magnetic Resonance Imaging
Muscles
Mouth Floor

Author Correction: Do no harm: a roadmap for responsible machine learning for health care (Nature Medicine, (2019), 25, 9, (1337-1340), 10.1038/s41591-019-0548-6)

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., Oct 1 2019, In : Nature medicine. 25, 10, 1 p.

Research output: Contribution to journalComment/debate

Open Access
HTML
Ontario
Child Development
Health care
Medicine

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

Semantics
Learning
Pediatrics
ROC Curve
Area Under Curve

Automated Surgical Activity Recognition with One Labeled Sequence

DiPietro, R. & Hager, G. D., Jan 1 2019, Medical Image Computing and Computer Assisted Intervention – MICCAI 2019 - 22nd International Conference, Proceedings. Shen, D., Yap, P-T., Liu, T., Peters, T. M., Khan, A., Staib, L. H., Essert, C. & Zhou, S. (eds.). Springer, p. 458-466 9 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11768 LNCS).

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

Activity Recognition
Surgery
Availability
Robots
Annotation

Automatic quality control using hierarchical shape analysis for cerebellum parcellation

Zuo, L., Han, S., Carass, A., Ying, S. H., Onyike, C. U. & Prince, J. L., Jan 1 2019, Medical Imaging 2019: Image Processing. Angelini, E. D., Angelini, E. D., Angelini, E. D. & Landman, B. A. (eds.). SPIE, 109490J. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 10949).

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

cerebellum
quality control
Quality Control
Cerebellum
Quality control

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
Brain
Normal Pressure Hydrocephalus
Brain Diseases
Hydrocephalus
Cerebrospinal Fluid

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. A. & 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
Caulobacter crescentus
RNA
Alphaproteobacteria
Substrate Specificity
Protein C

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
decision making
hydraulics
cells
microchannels
myosins

Cerebellum parcellation with convolutional neural networks

Han, S., He, Y., Carass, A., Ying, S. H. & Prince, J. L., Jan 1 2019, Medical Imaging 2019: Image Processing. Angelini, E. D., Angelini, E. D., Angelini, E. D. & Landman, B. A. (eds.). SPIE, 109490K. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 10949).

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

cerebellum
Cerebellum
Neural networks
Magnetic resonance
Magnetic Resonance Spectroscopy

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., Sep 1 2019, In : Critical care medicine. 47, 9, p. 1232-1234 3 p.

Research output: Contribution to journalArticle

Surgical Instruments
Documentation
Caregivers
Observational Studies
Nurses

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

Immunoglobulin Fragments
Antibodies
Amino acids
Hot Temperature
Clostridium botulinum

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 : The Journal of cell biology. 218, 12, p. 4093-4111 19 p.

Research output: Contribution to journalArticle

Open Access
Blister
Myosin Type II
Nuclear Envelope
Cell Movement
Rupture

Control of Chemotaxis Through Absolute Concentration Robustness

Bhattacharya, S., Biswas, D., Enciso, G. A. & Iglesias, P. A., Jan 18 2019, 2018 IEEE Conference on Decision and Control, CDC 2018. Institute of Electrical and Electronics Engineers Inc., p. 4360-4365 6 p. 8619195. (Proceedings of the IEEE Conference on Decision and Control; vol. 2018-December).

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

Chemotaxis
Robustness
Pathogens
Cell
Gradient

Control theory in biology and medicine: Introduction to the special issue

Thomas, P. J., Olufsen, M., Sepulchre, R., Iglesias, P. A., Ijspeert, A. & Srinivasan, M., Apr 1 2019, In : Biological Cybernetics. 113, 1-2

Research output: Contribution to journalEditorial

Open Access
Control theory
Medicine
Control systems
Education
Precision Medicine
Open Access
Computer-Assisted Surgery
Radiology
Robotics
Surgery
Ultrasonics

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., Jan 1 2019, In : Magnetic Resonance Imaging.

Research output: Contribution to journalArticle

Magnetic resonance imaging
Magnetic Resonance Imaging
Learning
Atrophy
Hardware

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., Hui, F., Hager, G. & Harvey, S., Jan 1 2019, In : Journal of Digital Imaging.

Research output: Contribution to journalArticle

Open Access
Mammography
Semantics
Labeling
Learning systems
Learning

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., Sair, H. & Lin, C., Jan 1 2019, (Accepted/In press) In : Journal of Digital Imaging.

Research output: Contribution to journalArticle

Pediatrics
Thorax
Learning
Neural networks
Learning systems

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
tongue
muscles
learning
magnetic resonance
cancer
Vascular Endothelial Growth Factor Receptor-2
Dimerization
Ligands
Vascular Endothelial Growth Factor A
Human Development

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
Health care
Learning systems
Delivery of Health Care
Medicine
Patient Care

Dose/Volume histogram patterns in Salivary Gland subvolumes influence xerostomia injury and recovery

Han, P., Lakshminarayanan, P., Jiang, W., Shpitser, I., Hui, X., Lee, S. H., Cheng, Z., Guo, Y., Taylor, R. H., Siddiqui, S. A., Bowers, M., Sheikh, K., Kiess, A. P., Page, B., Lee, J., Quon, H. & McNutt, T., Dec 1 2019, In : Scientific reports. 9, 1, 3616.

Research output: Contribution to journalArticle

Open Access
Xerostomia
Salivary Glands
Wounds and Injuries
Radiotherapy
Mouth

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

Sotirchos, E. S., Gonzalez-Caldito, N., Dewey, B. E., Fitzgerald, K., Glaister, J., Filippatou, A., Ogbuokiri, E., Feldman, S., Kwakyi, O., Risher, H., Crainiceanu, C. M., Pham, D. L., Van Zijl, P. C., Mowry, E. M., Reich, D. S., Prince, J. L., Calabresi, P. & Saidha, S., Jan 1 2019, In : Multiple Sclerosis Journal.

Research output: Contribution to journalArticle

Multiple Sclerosis
Atrophy
Therapeutics
Brain
Gray Matter

Enabling machine learning in X-ray-based procedures via realistic simulation of image formation

Unberath, M., Zaech, J. N., Gao, C., Bier, B., Goldmann, F., Lee, S. C., Fotouhi, J., Taylor, R. H., Armand, M. & Navab, N., Jan 1 2019, In : International Journal of Computer Assisted Radiology and Surgery.

Research output: Contribution to journalArticle

Learning systems
Image processing
X-Rays
Neural networks
X rays

Enabling migration by moderation: YAP/TAZ are essential for persistent migration

Nair, P. R. & Wirtz, D., Apr 1 2019, In : The Journal of cell biology. 218, 4, p. 1092-1093 2 p.

Research output: Contribution to journalComment/debate

Open Access
Cell Movement
Physiological Phenomena
Embryonic Development
Neoplasm Metastasis
Tomography
Navigation
Imaging techniques
Statistics
Endoscopy

Engineering immunity with quantitative tools

Jewell, C. M. & Gray, J. J., Aug 1 2019, In : Molecular Systems Design and Engineering. 4, 4, p. 677-678 2 p.

Research output: Contribution to journalEditorial

Engineering nanomolar peptide ligands that differentially modulate EphA2 receptor signaling

Gomez-Soler, M., Gehring, M. P., Lechtenberg, B. C., Zapata-Mercado, E., Hristova, K. A. & Pasquale, E. B., Jan 1 2019, In : Journal of Biological Chemistry. 294, 22, p. 8791-8805 15 p.

Research output: Contribution to journalArticle

varespladib methyl
Ligands
Peptides
Ephrins
Crystal structure
Cell Surface Extensions
document markup languages
HTML
communication
Chemical activation
Cell Surface Extensions
document markup languages
HTML
Labels
communication

Evaluating the impact of intensity normalization on MR image synthesis

Reinhold, J. C., Dewey, B. E., Carass, A. & Prince, J. L., Jan 1 2019, Medical Imaging 2019: Image Processing. Angelini, E. D., Angelini, E. D., Angelini, E. D. & Landman, B. A. (eds.). SPIE, 109493H. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 10949).

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

synthesis
Learning
preprocessing
image analysis
Image analysis

Flexible Backbone Assembly and Refinement of Symmetrical Homomeric Complexes

Roy Burman, S. S., Yovanno, R. A. & Gray, J. J., Jun 4 2019, In : Structure. 27, 6, p. 1041-1051.e8

Research output: Contribution to journalArticle

Open Access
Benchmarking
Proteins

How the mechanobiome drives cell behavior, viewed through the lens of control theory

Kothari, P., Johnson, C., Sandone, C., Iglesias, P. A. & Robinson, D., Sep 2 2019, In : Journal of cell science. 132, 17

Research output: Contribution to journalReview article

Open Access
Lenses
Proteins
Myosin Type II
Actomyosin
Cell Shape

Image-Guided Mastoidectomy with a Cooperatively Controlled ENT Microsurgery Robot

Razavi, C. R., Wilkening, P. R., Yin, R., Barber, S. R., Taylor, R. H., Carey, J. P. & Creighton, F., Jan 1 2019, (Accepted/In press) In : Otolaryngology - Head and Neck Surgery (United States).

Research output: Contribution to journalArticle

Microsurgery
Robotics
Temporal Bone
Otolaryngology
Feasibility Studies

Large-scale parcellation of the ventricular system using convolutional neural networks

Atlason, H. E., Shao, M., Robertsson, V., Sigurdsson, S., Gudnason, V., Prince, J. L. & Ellingsen, L. M., Jan 1 2019, Medical Imaging 2019: Biomedical Applications in Molecular, Structural, and Functional Imaging. Gimi, B. & Krol, A. (eds.). SPIE, 109530N. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 10953).

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

brain
Labels
Brain
Neural networks
markers

Layer boundary evolution method for macular OCT layer segmentation

Liu, Y., Carass, A., He, Y., Antony, B. J., Filippatou, A., Saidha, S., Solomon, S., Calabresi, P. & Prince, J. L., Mar 1 2019, In : Biomedical Optics Express. 10, 3, p. 1064-1080 17 p., 349227.

Research output: Contribution to journalArticle

Optical Coherence Tomography
boundary layers
tomography
retina
evaluation

Learning to Avoid Poor Images: Towards Task-aware C-arm Cone-beam CT Trajectories

Zaech, J. N., Gao, C., Bier, B., Taylor, R., Maier, A., Navab, N. & Unberath, M., Jan 1 2019, Medical Image Computing and Computer Assisted Intervention – MICCAI 2019 - 22nd International Conference, Proceedings. Shen, D., Yap, P-T., Liu, T., Peters, T. M., Khan, A., Staib, L. H., Essert, C. & Zhou, S. (eds.). Springer, p. 11-19 9 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11768 LNCS).

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

Computed Tomography
Tomography
Cones
Cone
Trajectories

Learning to Detect Collisions for Continuum Manipulators Without a Prior Model

Sefati, S., Sefati, S., Iordachita, I., Taylor, R. H. & Armand, M., Jan 1 2019, Medical Image Computing and Computer Assisted Intervention – MICCAI 2019 - 22nd International Conference, Proceedings. Shen, D., Yap, P-T., Liu, T., Peters, T. M., Khan, A., Staib, L. H., Essert, C. & Zhou, S. (eds.). Springer, p. 182-190 9 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11768 LNCS).

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

Manipulator
Manipulators
Continuum
Collision
Curvature