VRL

Research

Precision Medicine and Medical Image Analysis

Projects People Videos Talks Publications Bibliography

Projects

Image-based Wrist Motion Tracking
Image-based Measurements and Models
Motion Tracking from Digitally Reconstructed Radiographs
GRACE: Geriatric Research in Ambulatory and Cognitive Excellence
Bioinformatics Visualization: Fixing Protein Sequences

People

Koonwah Chen
Md. Abedul Haque
Mary Letera
Timothy Luciani
Sriranjani Mandayam
Liz Marai
Adrian Maries
Revanth Reddy
Ashwin Venkataraman
John Wenskovitch

Videos

 



Talks

 



 

Publications

2017

[Aerts-2017-POT]
J. Aerts, A. Lex, G.E. Marai, M. Streit, D. Weiskopf, "Proceedings of the Symposium on Biological Data Visualization at VIS 2016", BMC Bioinformatics, Vol. 18(2), pp. 0--0, Feb 2017. (pdf) (bibtex: Aerts-2017-POT).
[al-2017-NTR]

H. Elhalawani et al, "Normal Tissue Radiomic Feature Kinetics in Oropharygeal Cancers Treated with Image-Guided Radiation Therapy: Assessment of Parotid Glands Textural Changes on Daily Non-contrast CT", Radiology Society of North America meeting RSNA 2017, pp. 0--0, 2017. (pdf) (bibtex: al-2017-NTR).
[al-2017-PTH]

H. Elhalawani et al, "Predicting the HPV P16 Status of Oropharyngeal Cancer Patients Using Radiomics and an Ensemble of Random Forests", Radiology Society of North America meeting RSNA 2017, pp. 0--0, 2017. (pdf) (bibtex: al-2017-PTH).
[Fuller-2017-PRO]
C.D. Fuller, H. Elhalawani, A.S.R. Mohamed, A. White, J. Zafereo, A. Wong, J. Berends, S. AboHashem, B. Williams, J. Aymard , A. Kanwar , S. Perni , C. Rock , L. Cooksey , S. Campbell , Y. Ding, S. La, "Permanent Repository of Matched Contrast CT Segmentation and Curated Demographic Data for the 2016 MICCAI Computational Precision Medicine (CPM) Oropharyngeal Carcinoma Radiomics Challenges", Nature Scientific Data, Vol. 0(0), pp. 0--0, 2017. (pdf) (bibtex: Fuller-2017-PRO).
[Group-2017-CSA]
Multidisciplinary Larynx Cancer Working Group, "Conditional Survival Analysis of Patients With Locally Advanced Laryngeal Cancer: Construction of a Dynamic Risk Model and Clinical Nomogram", Nature Scientific Reports, Vol. 7(0), pp. 0--0, 2017. (pdf) (bibtex: Group-2017-CSA).
[Ma-2017-PVT]
C. Ma, T. Luciani, A. Terebus, J. Liang, G.E. Marai, "PRODIGEN: Visualizing the probability landscape of stochastic gene regulatory networks in state and time space", BMC Bioinformatics, Vol. 18(2), pp. 1--13, Feb 2017. (pdf) (bibtex: Ma-2017-PVT).
[Ma-2017-VET]

C. Ma, A. Burks, T. Luciani, A. Terebus, J. Liang, GE Marai, "Visualizing ensemble time-evolving probability landscapes of stochastic networks", ISMB/ECCB 2017 Poster Compendium, BioVis 2017, pp. 1--2, 2017. (pdf) (bibtex: Ma-2017-VET).

2016

[al-2016-CEC]

A. Kanwar et al, "Contrast-enhanced CT (CE-CT) Texture Analysis Radiomic Analysis of Pretreatment Contrast-Enhanced CT Imaging Predicts Local Failure in Oropharyngeal Cancers Treated with Radiotherapy", ASTRO 2016, pp. 1--2, 2016. (pdf) (bibtex: al-2016-CEC).
[Kanwar-2016-DOA]
A Kanwar, AS Mohamed, LE Court, L Zhang, GE Marai, G Canahuate, JS Lee, S Perni, JA Messer, BH Pham, B Youssef, D Vock, A Rao, J Kalpathy-Cramer, GB Gunn, DI Rosenthal, CD Fuller, "Development of a Predictive Quantitative Contrast Computed Tomography-Based Feature (Radiomics) Profile for Local Recurrence in Oropharyngeal Cancers", International Journal of Radiation Oncology, Biology, Physics, Vol. 96(2), pp. 0--0, Feb 2016. (pdf) (bibtex: Kanwar-2016-DOA).
[Ma-2016-PVT]

C. Ma, T. Luciani, A. Terebus, J. Liang, G.E. Marai, "PRODIGEN: Visualizing the probability landscape of stochastic gene regulatory networks in state and time space", IEEE BioVis 2016, pp. 1--13, Oct 2016. (pdf) (bibtex: Ma-2016-PVT).

2015

[Aerts-2015-HFT]
J. Aerts, G.E. Marai, K. Nieselt, C. Nielsen, M. Streit, D. Weiskopf, "Highlights from the 5th Symposium on Biological Data Visualization: Part 1", BMC Bioinformatics, Vol. 16(0), pp. 1--2, 2015. (bibtex: Aerts-2015-HFT).
[Aerts2-2015-HFT]
J. Aerts2, G.E. Marai, K. Nieselt, C. Nielsen, M. Streit, D. Weiskopf, "Highlights from the 5th Symposium on Biological Data Visualization: Part 2", BMC Proceedings, Vol. 9(0), pp. 1--2, 2015. (bibtex: Aerts2-2015-HFT).
[Marai-2015-VSI]

G.E. Marai, "Visual Scaffolding in Integrated Spatial and Nonspatial Visual Analysis", The Sixth International Eurovis workshop on Visual Analytics EuroVA’15, pp. 1--5, 2015. (pdf) (bibtex: Marai-2015-VSI).

2014

[Luciani-2014-FIE]
T. Luciani, J. Wenskovitch, K. Chen, D. Koes, T. Travers, G.E. Marai, "FixingTIM: Interactive Exploration of Sequence and Structural Data to Identify Functional Mutations in Protein Families", BMC Proceedings 2014, 8(Suppl 2):S3, Vol. 0(8), pp. 1--9, Aug 2014. (pdf) (bibtex: Luciani-2014-FIE).
[Marai-2014-BBB]
G.E. Marai, S. O’Donoghue, C. Bartlett and J. Aerts (editors), "BMC Bioinformatics Biological Data Visualization Series", BioMed Central, Vol. 0(0), pp. 1--100, 2014. (bibtex: Marai-2014-BBB).
[Mays-2014-UIT]
N. Mays, C. Rosano, H.J. Aizenstein, R. Boudreau, G.E. Marai, A. Maries, W.J. Layton, F. Thomas, K. Yaffe, L.J. Launer. A.B. Newman, "Using iterated Tikhonov regularization with the L-curve method to Quantify the Correlation Between Neuroimaging and Gait Data", Journal of Computer Math, Vol. 0(0), pp. 1--27, 2014. In Review. (pdf) (bibtex: Mays-2014-UIT).

2013

[Haque-2013-ASA]

Md. A. Haque, G. E. Marai, "A Semi-Automated Method for Subject-Specific Modeling of the Spinal Canal from Computed Tomography Images and Dynamic Radiographs", The 18th International Workshop on Vision, Modeling and Visualization, pp. 1--8, Sep 2013. (pdf) (bibtex: Haque-2013-ASA).
[Haque-2013-HMB]
Md. A. Haque, W. Anderst, S. Tashman, G.E. Marai, "Hierarchical Model-based Tracking of Cervical Vertebrae from Dynamic Biplane Radiographs", Journal of Medical Engineering and Physics, Vol. 35(7), pp. 994--1004, Jul 2013. (pdf) (bibtex: Haque-2013-HMB).
[Haque-2013-ITM]

Md. A. Haque, G. E. Marai, "Image to Mesh: Spinal Ligament 3D Surface Models from Bone Volume Images and Dynamic Radiographs", MeshMed: Workshop on Mesh Processing in Medical Imaging, Medical Image Computing and Computer Assisted Intervention (MICCAI) 2013, pp. 1--12, Sep 2013. (pdf) (bibtex: Haque-2013-ITM).
[Maries-2013-GAV]
A. Maries, N. Mays, M. Olson Hunt, K.F. Wong, W. Layton, R. Boudreau, C. Rosano, G.E. Marai, "GRACE: A Visual Comparison Framework for Integrated Spatial and Non-Spatial Geriatric Data", IEEE Transactions on Visualization and Computer Graphics (Proceedings Scientific Visualization 2013), Vol. 19(12), pp. 1--10, Dec 2013. (pdf) (bibtex: Maries-2013-GAV).
[Wenskovitch-2013-FTI]
IEEE BioVis'13 Data Contest Visualization Award
J. Wenskovitch, T. Luciani, K. Chen, G.E. Marai, "Fixing TIM: Identifying Functional Mutations in Protein Families through the Interactive Exploration of Sequence and Structural Data", IEEE BioVis 2013 Data Competition, pp. 1--4, 2013. (pdf) (bibtex: Wenskovitch-2013-FTI).

2012

[Haque-2012-VOA]

Md. A. Haque, W. Anderst, S. Tashman, G.E. Marai, "Validation of a Non-invasive Automated Hierarchical Method to Precisely Measure Lumbar Spine Movement", The 2012 Annual Meeting of the Orthopaedic Research Society, pp. 1--1, Feb 2012. (pdf) (bibtex: Haque-2012-VOA).

2011

[Maries-2011-VAO]

A. Maries, S. Mandayam, C. Rosano, G.E. Marai, "Visual Analysis of Brain/Gait Correlations", IEEE Visualization 2011, Poster Abstracts with System Demonstration, pp. 1--2, 2011. (pdf) (bibtex: Maries-2011-VAO).

2008

[Marai-2008-AKB]

G.E. Marai, J.J. Crisco, D.H. Laidlaw, "A Kinematics-Based Method for Evaluating the Stabilizing Role of Ligaments in the Carpal Joint", 16th Annual Symposium on Computational Methods in Orthopaedic Biomechanics, pp. 0--0, Mar 2008. (pdf) (bibtex: Marai-2008-AKB).

2007

[Crisco-2007-EOD]
J.J. Crisco, D. Moore, G.E. Marai, D.H. Laidlaw, E. Akelman, A. C. Weiss, S.W. Wolfe, "Effects of Distal Radius Malunion on Distal Radioulnar Joint Mechanics -- An In-Vivo Study", Journal of Orthopedic Research, Vol. 25(1), pp. 547--555, Jan 2007. (pdf) (bibtex: Crisco-2007-EOD).
[Marai-2007-DDP]
G.E. Marai, "Data-driven Predictive Modeling of Diarthrodial Joints", Ph.D. Dissertation, Brown University, Vol. 0(5), pp. 0--0, May 2007. (pdf) (bibtex: Marai-2007-DDP).

2006

[Marai-2006-AKB]

G.E. Marai, J.J. Crisco, D.H. Laidlaw, "A Kinematics-Based Method for Generating Cartilage Maps and Deformations in the Multi-Articulating Wrist Joint From CT Images", IEEE 2006 Conference of the Engineering in Medicine and Biology Society (EMBC'06), pp. 2079--2082, Sep 2006. (pdf) (bibtex: Marai-2006-AKB).
[Marai-2006-SRR]
G.E. Marai, D.H. Laidlaw, J.J. Crisco, "Super-Resolution Registration Using Tissue-Classified Distance Fields", IEEE Transactions on Medical Imaging, Vol. 25(2), pp. 177--187, Feb 2006. (pdf) (bibtex: Marai-2006-SRR).

2005

[Marai-2005-MIS]

G.E. Marai, D.H. Laidlaw, "Markerless inter-subject bone shape matching using 2D projections", MICCAI 2005 short papers, pp. 0--0, 2005. (pdf) (bibtex: Marai-2005-MIS).

2004

[Marai-2004-JAI]

G. E. Marai, C. Demiralp, S. Andrews, D. H. Laidlaw, "JointViewer -- an interactive system for exploring orthopedic data", IEEE Visualization 2004 Poster Compendium, pp. 0--0, 2004. (pdf) (bibtex: Marai-2004-JAI).

2003

[Crisco-2003-KAM]

J.J. Crisco, G.E. Marai, D.H. Laidlaw, D. Moore, E. Akelman, "Kinematic and mechanical changes in the distal radioulnar joint (druj) of patients with malunited distal radius fractures", 49th Annual Meeting of the Orthopaedic Research Society, pp. 0--0, 2003. (pdf) (bibtex: Crisco-2003-KAM).
[Marai-2003-A3M]

G.E. Marai, D.H. Laidlaw, J.J. Coburn, M.A. Upal, J.J. Crisco, "A 3D Method for Segmenting and Registering Carpal Bones from CT Volume Images", Annual Meeting of the American Society of Biomechanics, pp. 0--0, 2003. (pdf) (bibtex: Marai-2003-A3M).
[Marai-2003-EJC]
G.E. Marai, D.H. Laidlaw, C. Demiralp, S. Andrews, C.M. Grimm, J.J. Crisco, "Estimating Joint Contact Areas and Ligament Lengths from Bone Kinematics and Surfaces", IEEE Transactions on Biomedical Engineering, Vol. 51(5), pp. 790--799, May 2003. (pdf) (bibtex: Marai-2003-EJC).

2002

[Marai-2002-CAA]

G.E. Marai, D.H. Laidlaw, C. Demiralp, C. Grimm, J.J. Crisco, D. Moore, A.E. Akelman, "Contact Areas and Ligament Lengths are Abnormal in Patients with Malunited Distal Radius Fracture Despite Normal Radioulnar Kinematics", 4th World Congress Biomechanics, pp. 0--0, Aug 2002. (pdf) (bibtex: Marai-2002-CAA).

2001

[Demiralp-2001-MAV]
C. Demiralp, G.E. Marai, S. Andrews, D.H. Laidlaw, J.J. Crisco, C. Grimm, "Modeling and Visualization of Inter-Bone Distances in Joints", IEEE Visualization 2001, Work in Progress Proc., Vol. 0(0), pp. 0--0, 2001. (pdf) (bibtex: Demiralp-2001-MAV).
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