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Liz Marai

Projects Themes Talks Publications

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Projects

Mosbie: Exploring Exploring Cell Pathway Rule-Based Model Development over Time
Public Speech Training
Astroshelf: Panning and Zooming the Observable Universe
Interactive Multiplots for Regression Testing of Software Programs
GRACE: Geriatric Research in Ambulatory and Cognitive Excellence
RuleBender: Visual Debuggers for Diagram-Based Biological Models
Bioinformatics Visualization: Fixing Protein Sequences
Stress Tensor Exploration for Turbulent Combustion Calculations
GL Painter
Environmentally-Themed Video Gaming
JointViewer: Visual Analysis of Orthopaedics Data
Intelligent Tutoring Systems for Physics Majors
The Chinese Room: Machine Translation Visualization
Predictive Computational Models for Orthopaedics
Image-based Measurements and Models
Motion Tracking from Digitally Reconstructed Radiographs
Image-based Wrist Motion Tracking

Themes

Visual Analysis in Science and Engineering
Graphics Exploratories
Precision Medicine and Medical Image Analysis
BioVis: Bioinformatics and Computational Biology Visualization

Talks

LSST: Data Management and Visualization at Pitt CS
TLI: Graphics and Visualization for High-Schoolers
BBSI: Data-driven Modeling of Joints
GfxLab2008
SAM09: Computational Modeling and Visualization for Science
Fixing TIM: Identifying Functional Mutations in Protein Families through the Interactive Exploration of Sequence and Structural Data
Fixing TIM (Full Talk)

 



 

Publications

2015

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).
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).
J. Aurisano, K. Reda, A. Johnson, G.E. Marai, J. Leigh, "BactoGeNIE: A Large-Scale Comparative Genome Visualization for Big Displays", BMC Bioinformatics, Vol. 16(0), pp. 1--13, 2015. (pdf) (bibtex: Aurisano-2015-BAL).

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).
A. Maries, T. Luciani, P.H. Pisciuneri, M.B. Nik, S.L. Yilmaz, P. Givi, G.E. Marai, "A Clustering Method for Identifying Regions of Interest in Turbulent Combustion Tensor Fields", Visualization and Processing of Higher Order Descriptors for Multi-Valued Data. Editors: Ingrid Hotz and Thomas Schultz, Springer, pp. 1--18, 2015. In Press. (pdf) (bibtex: Maries-2015-ACM).

2014

M. Hlawitschka, I. Hotz, A. Kratz, G.E. Marai, R. Moreno, G. Scheuermann, M. Stommel, A. Wiebel, E. Zhang, "Top Challenges in the Visualization of Engineering Tensor Fields", Visualization and Processing of Tensors and Higher-Order Descriptors for Multi-field Data, C.F. Westin, B. Burgeth and A. Vilanova (editors), Springer, pp. 1--13, 2014. (pdf) (bibtex: Hlawitschka-2014-TCI).
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).
T. Luciani, B. Cherinka, D. Oliphant, S. Myers, W.M. Wood-Vasey, A. Labrinidis, G.E. Marai, "Large-Scale Overlays and Trends: Visually Mining, Panning and Zooming the Observable Universe", IEEE Transactions on Visualization and Computer Graphics, Vol. 0(7), pp. 1--14, Jul 2014. (pdf) (bibtex: Luciani-2014-LSO).
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).
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).
J. Wenskovitch, L.A. Harris, J.J. Tapia, J.R. Faeder, G.E. Marai, "MOSBIE: A Tool for Comparison and Analysis of Rule-Based Biochemical Models", BMC Bioinformatics Journal 15:316, Vol. 15(0), pp. 1--22, 2014. (pdf) (bibtex: Wenskovitch-2014-MAT).

2013


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).
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).

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).

T. Luciani, A. Maries, M. Nik, S.L. Yilmaz, G.E. Marai, "Visualization of Tensor Quantities Used in Computational Turbulent Combustion", 66th Annual Meeting of the APS Division of Fluid Dynamics, pp. 1--1, 2013. (pdf) (bibtex: Luciani-2013-VOT).
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).

J. Wenskovitch, L. Harris, J. Faeder, G.E. Marai, "A Journaling System for Rule-Based Biochemical Models", IEEE BioVis Posters Compendium, pp. 1--1, 2013. (pdf) (bibtex: Wenskovitch-2013-AJS).
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


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).

M. Liang, J. Guerra, G.E. Marai, P. Brusilovsky, "Collaborative E-Learning through Open Social Student Modeling and Progressive Zoom Navigation", The 8th IEEE International Conference on Collaborative Computing: Networking, Applications and Worksharing, pp. 1--10, 2012. In Press. (pdf) (bibtex: Liang-2012-CEL).

T. Luciani, A. Maries, H. Tran, M. Nik, S.L. Yilmaz, G.E. Marai, "A Novel Method for Tracking Tensor-based Regions of Interest in Large-Scale, Spatially-Dense Turbulent Combustion Data", IEEE Visualization 2012 Poster Abstracts with System Demonstration, pp. 1--2, Oct 2012. In Press. (pdf) (bibtex: Luciani-2012-ANM).
IEEE LDAV'12 Best-Paper Runner-Up (Honorable Mention)
T. Luciani, B. Cherinka, S. Myers, B. Sun, W.M. Wood-Vassey, A. Labrinidis, G.E. Marai, "Panning and Zooming the Observable Universe with Prefix-Matching Indices and Pixel-Based Overlays", IEEE Visualization 2012, Large-Scale Data Analysis and Visualization Symposium, pp. 1--8, Oct 2012. (pdf) (bibtex: Luciani-2012-PAZ).
A. Maries, Md. A. Haque, S. L. Yilmaz, M. B. Nik, G.E. Marai, "Interactive Exploration of Stress Tensors Used in Computational Turbulent Combustion", New Developments in the Visualization and Processing of Tensor Fields, D. Laidlaw and A. Villanova (editors), Springer, pp. 137--156, 2012. (pdf) (bibtex: Maries-2012-IEO).

P. Neophytou, R. Gheorghiu, R. Hachey, T. Luciani, B. Sun, A. Labrinidis, G.E. Marai, P. K. Chrysanthis, "AstroShelf: Understanding the Universe through Scalable Navigation of a Galaxy of Annotations", SIGMOD 2012 System Demonstrations Compendium, pp. 1--4, May 2012. (pdf) (bibtex: Neophytou-2012-AUT).
A.M. Smith, W. Xu, Y. Sun, J.R. Faeder, G.E. Marai, "RuleBender: Integrated Modeling, Simulation and Visualization for Rule-Based Intracellular Biochemistry", BMC Journal of Bioinformatics, Vol. 13(6), pp. 1--16, Jun 2012. (pdf) (bibtex: Smith-2012-RIM).

2011


T. Luciani, R. Hachey, D.Q. Oliphant, B.A. Cherinka, G.E. Marai, "Pixel-based Overlays for Navigating a Galaxy of Observations", IEEE Visualization 2011, Large-Scale Data Analysis and Visualization Symposium, Poster Abstracts with System Demonstration, pp. 1--2, Oct 2011. (pdf) (bibtex: Luciani-2011-PBO).

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).

S.D. Rothenberger, J.E. Wenskovitch, G.E. Marai, "Pexel and Heatmap Visual Analysis of Multidimensional Gun/Homicide Data", IEEE Visualization 2011, Visual Analytics Science and Technology (VAST) Conference, Poster Abstracts with System Demonstration, pp. 1--2, Oct 2011. (pdf) (bibtex: Rothenberger-2011-PAH).

A. Smith, W. Xu, J.R. Faeder, G.E. Marai, "Scalable Global Views for Biological Rule-Based Modeling", IEEE Visualization 2011, Information Visualization, Poster Abstracts with System Demonstration, pp. 1--2, Oct 2011. (pdf) (bibtex: Smith-2011-SGV).
W. Xu, A. Smith, J.R. Faeder, G.E. Marai, "RuleBender: A Visual Interface for Rule-Based Modeling", Bioinformatics Journal, Vol. 27(4), pp. 1721--2, Apr 2011. (pdf) (bibtex: Xu-2011-RAV).

2010


A.M. Smith, W. Xu, Y. Sun, J.R. Faeder, G.E. Marai, "Visual Tools for Modeling and Simulation of Cell Signaling Networks ", Carnegie Mellon University Bioimaging Informatics Symposium, pp. 1--1, Sep 2010. (pdf) (bibtex: A.M. Smith-2010-VTF).

Md. A. Haque, A. Maries, S.L. Yilmaz, M.B. Nik, G.E. Marai, "Tensor Visualization in Computational Turbulent Combustion: A Case Study", IEEE Visualization 2010, Poster Abstracts with System Demonstration, pp. 1--2, 2010. (pdf) (bibtex: Haque-2010-TVI).

D.Q. Oliphant, B.A. Cherinka, W.M. Wood-Vasey, J.A. Newman, A. Labrinidis, P. Chrysanthis, G.E. Marai, "Navigating a Galaxy of Observations: From Frustration to Innovation", Technical Report TR-2011-02, pp. 0--0, 2010. (pdf) (bibtex: Oliphant-2010-NAG).

D.Q. Oliphant, G.E. Marai, "Real Time Ray Tracing in a Space Limited Environment", Technical Report TR-2011-03, pp. 0--0, 2010. (pdf) (bibtex: Oliphant-2010-RTR).

2009


J. Albrecht, R. Hwa. G. E. Marai, "Correcting Automatic Translations through Collaborations between MT and Monolingual Target-Language Users", EACL 2009, 12th Conference of the European Chapter of the Association for Computational Linguistics, Proceedings of the Conference, pp. 60--68, Mar 2009. (pdf) (bibtex: Albrecht-2009-CAT).
J.S. Albrecht, R. Hwa, G.E. Marai, "The Chinese Room: Visualization and Interaction to Understand and Correct Ambiguous Machine Translation", Computer Graphics Forum (also in 2009 Eurographics/IEEE Symposium on Visualization, Proceedings of), Vol. 28(6), pp. 1047--1054, Jun 2009. (pdf) (bibtex: Albrecht-2009-TCR).

G.E. Marai, J.J. Crisco, D.H. Laidlaw, "Development of a Kinematic 3D Carpal Model to Analyze In Vivo Soft-Tissue Interaction Across Multiple Static Postures", The 31st Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC'09), pp. 0--0, Sep 2009. (pdf) (bibtex: Marai-2009-DOA).

G.E. Marai, J.J. Crisco, D.H. Laidlaw, "Estimation of Optimal Carpal Contact in the Human Wrist from Multiple Static Articulation Postures", BMES (Biomedical Engineering Society) 2009 Annual Fall Scientific Meeting, pp. 0--0, Oct 2009. (pdf) (bibtex: Marai-2009-EOO).

G.E. Marai, "MyWorld4D: Introduction to Computer Graphics with a Modeling and Simulation Twist", ACM SIGGRAPH 2009 Education track, pp. 0--0, Aug 2009. (pdf) (bibtex: Marai-2009-MIT).

A.M. Smith, J.J. Geiger, G.M. Kapfhammer, M. Renieris, G.E. Marai, "Interactive Coverage Effectiveness Multiplots for Evaluating Prioritized Regression Test Suites", IEEE Visualization 2009 Poster Compendium, pp. 0--0, 2009. (pdf) (bibtex: Smith-2009-ICE).

W. Xiong, D. Litman, G.E. Marai, "Analyzing Prosodic Features and Student Uncertainty using Visualization", AAAI-FSS'09, pp. 0--0, Sep 2009. (pdf) (bibtex: Xiong-2009-APF).

2008


J.S. Albrecht, R. Hwa, G.E. Marai, "The Chinese Room - Understanding and Correcting Machine Translation", IEEE Information Visualization 2008 Poster Abstracts with System Demonstration, pp. 1--2, 2008. (pdf) (bibtex: Albrecht-2008-TCR).

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

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).
G.E. Marai, C.M. Grimm, D.H. Laidlaw, "Arthrodial Joint Markerless Cross-Parameterization and Biomechanical Visualization", IEEE Transactions on Visualization and Computer Graphics, Vol. 13(9), pp. 1095--1104, Sep 2007. (pdf) (bibtex: Marai-2007-AJM).
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


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).
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


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


E. Bromberg, A. Jonsson, G.E. Marai, M. McGuire, "Hybrid Billboard Clouds for Model Simplification", ACM SIGGRAPH 2004 Poster Compendium, pp. 0--0, 2004. (pdf) (bibtex: Bromberg-2004-HBC).

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).

P. Sibley, P. Montgomery, G.E. Marai, "Wang Cubes for Video Synthesis and Geometry Placement", ACM SIGGRAPH 2004 Poster Compendium, pp. 0--0, 2004. (pdf) (bibtex: Sibley-2004-WCF).

2003


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).

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).
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


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).
G.E. Marai, C. Demiralp, S. Andrews, D.H. Laidlaw, C. Grimm, J.J. Crisco, "Visualization of Contact Areas and Ligament Paths in Joints", Technical Report CS-02-15, Brown University Computer Science Department, Vol. 0(8), pp. 0--0, Aug 2002. (pdf) (bibtex: Marai-2002-VOC).

2001

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).

1998

G.E. Marai, "Geometry Compression of DirectX Files", Technical Report 322/98, Philips Research (company-restricted distribution)., Vol. 0(9), pp. 0--0, Sep 1998. (bibtex: Marai-1998-GCO).
G.E. Marai, "KQML - Communication among Intelligent Agent Systems", M.S. dissertation, Politehnica University of Bucharest (in Romanian), Vol. 0(6), pp. 0--0, Jun 1998. (bibtex: Marai-1998-KCA).

1997


G.E. Marai, "Time-delay Neural Network System for Speech Recognition", Politehnica University of Bucharest, pp. 0--0, Jul 1997. (bibtex: Marai-1997-TDN).

1996

G.E. Marai, A. Ivan, "Neural Networks versus Fuzzy Logic", Politehnica Bioengineering Scientific Session (in Romanian), Vol. 0(5), pp. 0--0, May 1996. (bibtex: Marai-1996-NNV).

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