Theses

PHD: Tools and applications for imaging-based cardiovascular mechanics. Univeristy of Utah. Committee Chair: Edward W. Hsu

MS: Control of a magnetically levitated ventricular assist device. Rochester Institute of Technology. Committee Chair: Steven W. Day

Book Chapters

Magnetic Bearings for Assist Devices. Day SW, Cheng S, Gomez AD. Biomedical & Nanomedical Technologies Concise Monograph series. ASME Press. New York: 2015. ISBN 978-0791860410

Mapping Myocardial Fiber Structure Using Diffusion Tensor Imaging. Abdullah OM, Gomez AD, Welsh CL, Hsu EW. in Latest Advances in Clinical and Pre-Clinical Cardiovascular MRI by Constantinides C. Bentham Science Press. ISBN 978-1608058075.

Research Articles

Measurements of human brain deformation in 3D via harmonic phase analysis of tagged MRI and finite-element models (HARP-FE). Gomez AD, Xing F, Chan D, Pham DL, Bayly P, Prince JL. IEEE Transactions in Biomedical Engineering, 2019 May;66(5):1456-1467, PMID: 30296208

Quantifying tongue tip shape in apical and laminal /s/ for control and glossectomy speakers. Stone M, Gomez AD, Zhuo J, Tchouaga AL, Gullapalli R, Prince JL. Journal of Acoustical Society of America

A sparse non-negative matrix factorization for identifying functional units of tongue behavior from MRI. Woo J, Prince JL, Stone ML, Xing F, Gomez AD, Jordan R, Reese TG, Weeden VJ, Fakhri GE. IEEE Transactions in Medical Imaging (epub), PMID: 30235120

Laplace-based modeling of fiber orientation the tongue. Gomez AD, Elsaid N, Stone ML, Zhuo J, Prince JL. Biomechanics and Modeling in Mechanobiology, 17(4) 1119-1130, PMID: 29675685, 2018

Phase Vector Incompressible Registration Algorithm (PVIRA) for Motion Estimation from Tagged Magnetic Resonance Images. Xing F, Woo J, Gomez AD, Pham DL, Bayly PV, Stone M, Prince JL. IEEE transactions on medical imaging 36 (10), 2116-2128. PMID: 28692967

Right Ventricular Fiber Structure as a Compensatory Mechanism in Pressure Overload: A Computational Study. Gomez AD, Zou H, Bowen ME, Liu X, Hsu EW, McKellar SH. ASME Journal of Biomechanical Engineering 139 (8), 081004. PMID: 28418458

Diffusion Tensor Imaging and Histology of Developing Hearts. Abdullah OM, Seidel T, Dahl M, Gomez AD, Yiep G, Cortino J, Sachse FB, Albertine K, Hsu EW. NMR in Biomedicine 29 (10), 1338-1349. PMID: 27485033

Parametric modeling of the mouse left ventricular myocardial fiber structure. Merchant SS, Gomez AD, Morgan JL, Hsu EW. Annals of biomedical engineering 44 (9), 2661-2673. PMID: 26942586

Orientation Dependence of Microcirculation-Induced Diffusion Signal in Anisotropic Tissues. Abdullah O, Gomez AD, Merchant SS, Heidinger M, Poelzing S, Hsu EW. Magnetic resonance in medicine 76 (4), 1252-1262. PMID: 26511215

Finite-element extrapolation of myocardial structure alterations across the cardiac cycle in rats. Gomez AD, Bull DA, SS. Hsu. EW. Journal of biomechanical engineering 137 (10), 101010. PMID: 26299478

Accurate high-resolution measurements of 3-D tissue dynamics with registration-enhanced displacement encoded. Gomez AD, Merchant SS, Hsu EW. MRI. IEEE transactions on medical imaging 33 (6), 1350-1362. PMID: 24771572

Animal model of reversible, right ventricular failure. McKellar SH, Javan H, Bowen M, Liu X, Briggs C, Zou D, Gomez AD, Abdullah O, Hsu EW, Selzman CH. Journal of surgical research 194 (2), 327-333. PMID: 25541238

Characterization of regional deformation and material properties of the intact explanted vein by micro-CT and computational analysis. Gomez AD, Zou D, Shiu Y-T, Hsu EW. Cardiovascular engineering and technology 5 (4), 359-370. PMID: 25541587

Manuscripts in Review or PREPARATION

Analysis of Fiber Strain in the Human Tongue During Speech. Gomez AD, Stone ML, Woo J, Xing F, and Prince JL. Computer Methods in Biomechanics and Biomedical Engineering (in review)

Group Characterization of Impact-Induced, In Vivo Brain Kinematics. Gomez AD, Knutsen AK, Butman JB, Pham DL, Bayly V, Prince JL. (submission pending)

Conference Proceedings & Extended Abstracts

Quantitative Validation of MRI-Based Motion Estimation for Brain Impact Biomechanics. Gomez AD, Knutsen AK, Pham DL, Bayly PV, Prince JL. Computational Biomechanics for Medicine Workshop (MICCAI 2018), oral presentation

Quantifying tensor field similarity with global distributions and optimal transport. Gomez AD, Stone ML, Bayly PV, Prince JL. MICCAI 2018 oral presentation

A novel filtering approach for 3D harmonic phase analysis of tagged MRI. Wang X, Stone ML, Prince JL, Gomez AD. SIPE Medical Imaging 2018.

Inverse biomechanical modeling via machine learning using synthetic training data. Tolpadi A, Carass A, Stone ML, Prince JL, Gomez AD. Accepted for SIPE Medical Imaging Conference 2018 (accepted)

Atlas of acceleration-induced brain deformation from measurements in vivo. Gomez AD, Knutsen A, Pham DL, Bayly PV, Prince JL. Computational Biomechanics for Medicine Workshop, MICCAI 2017 (in press)

Rule-based approach for assignment of myofiber distribution to human tongue models. Gomez AD, Elsaid N, Zhuo J, Stone ML, Prince JL. Summer Biomechanics, Bioengineering and Biotransport Conference (SB3C), Jun. 2017 Tucson, AZ.

Machine learning for estimation of activation patterns in computational models of the tongue. Gomez AD, Jog A, Stone ML, Prince JL. Summer Biomechanics, Bioengineering and Biotransport Conference (SB3C), Jun. 2017 Tucson, AZ.

Motion estimation with finite-element biomechanical models and tracking constraints from tagged MRI. Gomez AD, Xing F, Chan D, Pham D, Bayly P, Prince JL. Computational Biomechanics for Medicine, Springer Nature, Cham, 2017, pp. 81–90. Best Paper Award

Test suite for image-based motion estimation of the brain and tongue. Ramsey JA, Prince JL, Gomez AD. Ann. Biomed. SPIE: Image Processing, Feb. 2017 Tampa, FL.

Incompressible phase registration for motion estimation from tagged magnetic resonance images. Xing F, Woo J, Gomez AD, Pham DL, Bayly PV, Stone ML, Prince JL. Reconstruction, Segmentation, and Analysis of Medical Images. RAMBO 2016, HVSMR 2016. Lecture Notes in Computer Science, vol 10129. Springer, Cham

Curvilinear analysis of tongue muscle movement during speech production. Gomez AD, Stone M, Woo J, Xing F, Prince JL. PMHA 2016: 4th International Workshop on Biomechanical and Parametric Modeling of Human Anatomy. Aug. 2016. Vancouver, BC.

Numerical constraint for tracking tagged magnetic resonance images in biomechanical simulations. Gomez AD, Chan D, Lu Y-C, Pham D, Bayly P, Prince J. Summer Biomech., Biotransport, and Bioengineering Conference (SB3C). Jun, 2016. Washington, DC.

Computational analysis of right-ventricular fiber distribution as a compensatory mechanism during pressure overload. Gomez AD, Zou H, Abdullah OM, Bowen ME, Liu X, Bull DA, Hsu EW, Mckellar SH. Summer Biomechanics, Biotransport, and Bioengineering Conference (SB3C). Jun, 2016. Washington, DC.

Intravoxel incoherent motion and arterial spin labeling MRI of isolated perfused hearts. Abdullah O, Gomez AD, Merchant SS, Heidinger M, Poelzing S, Hsu EW. 23rd Annual Meeting of ISMRM, May 2015. Toronto, ON, Canada

Image-based dynamic analysis of brain deformation on a porcine brain injury model. Gomez AD, Scott GG, Terry B, Coats B. Summer Biomechanics, Bioengineering and Biotransport Conference (SB3C), June, 2015, Snowbird, UT.

Microcirculation-induced MRI signal anisotropy in organized tissues: finite element modeling and validation on perfused hearts. Abdullah O, Gomez AD, Hsu EW. Summer Biomechanics, Bioengineering and Biotransport Conference (SB3C), June,2015, Snowbird, UT.

Parametric representation, variability analysis and atlas construction of the mouse myocardial fiber structure. Merchant SS, Gomez AD, Hsu EW. Annual Meeting of International Society of Magnetic Resonance in Medicine (ISMRM). May, 2014. Milan, Italy.

Validation of finite element models of cardiac structure and kinematics via CINE, displacement-encoded, and diffusion MRI. Gomez AD, Welsh C, Merchant SS, Hsu EW. Biomedical Engineering Society (BMES) Annual Conference. October, 2014. San Antonio, TX.

Registration-enhanced reconstruction of DENSE-MRI tissue displacement fields. Gomez AD, Merchant SS, Hsu EW. Proceedings of the 11th International Symposium, Computer Methods in Biomech. and Biomedical Engineering (CMBBE). April, 2013. Salt Lake City, UT.

Perfusion effects on the diffusion-weighted signal in cardiac magnetic resonance imaging. Abdullah O, Gomez AD, Merchant SS, Stedham OL, Heidinger M, Poelzing S, Hsu EW. Annual Meeting of International Society of Magnetic Resonance in Medicine (ISMRM). May 2013, Salt Lake City, UT.

Multipurpose robotic platform for a 100Kg payload. Baker JT, Aclub J, Gomez AD, Gill JC, Smith BD, Harris J, Verma A, Zheng T. Multi-Disciplinary Engineering Design Conference at the Kate Gleason College of Engineering. Rochester Institute of Technology. Rochester, NY.

Conference Abstracts

Patterns of axonal fiber stretch during mild axial and sagittal acceleration in the live human brain. Knutsen KK, Gomez AD, Bayly PV, Butman JB, Pham DL. Symposium in Computer Methods in Biomechanical and Biomedical Engineering (CMBBE)

Discovering functional units of the human tongue during speech from cine- and tagged-MRI. Woo J, Stone ML, Fangxu X, Green J, Gomez AD, Wedeen VJ, Prince JL, El Fakhri G. Acoustics ’17 Boston. Jun. 2017, Boston, MA.

Benchmarks for motion estimation of the brain and tongue. Ramsey JA, Prince JL, Gomez AD. Annual Biomedical Research Conference for Minority Students (ABRCMS), Nov. 2016 Tampa, FL. Best Poster Award

Imaging of dynamic brain deformation in vivo for development and evaluation of brain biomechanics models. Bayly PV, Okamoto RJ, Gomez AD, Chan DD, Lu Y-C, Knutsen AK, Prince JL, Pham DL. XIV Int. Conference on Computational Plasticity. September, 2017. Barcelona, Spain.

Measurements of acceleration-induced deformation in the living human brain. Gomez AD, Knutsen A, Pham DL, Bayly PV, Prince JL. Full-Field 4D National Congress on Computational Mechanics (USNCCM14), July 2017, Montreal, QC, Canada.

A composite beam approach for efficient simulation of feather mechanics. Reader L, Zou H, Schmidt A, Hsu EW, Gomez AD. Annual meeting of the Society for Integrative and Comparative Biology (SICB). January, 2016. Portland, OR.

Myocardial microcirculation induces anisotropic diffusion-like magnetic resonance contrast. Abdullah O, Gomez AD, Merchant SS, Heidinger M, Poelzing S, Hsu EW. American Heart Association Scientific Sessions. November, 2015. Orlando, FL, USA,

Animal model of chronic, pressure-overload RV failure to study cardiac failure and recovery. McKellar SH, Liu Annie, Nelson N, Schaaf C, Zhou D, Abdullah O, Gomez AD, Whitehead K, Selzman C, Hsu EW. Academic Surgical Congress (ASC). February, 2014. San Diego, CA.

High-resolution characterization of vein deformation under arterial blood pressure. Shiu Y-T, Gomez AD, Watson B, Li H, Zhuplatov I, Cheung A, Hsu EW. Annual meeting of the American Society of Nephrology (ASN) Kidney Week. November 2013, Atlanta, GA.

A hybrid method for automatic reconstruction of 3D tissue displacement fields from MRI. Gomez AD, Merchant SS, Hsu EW. Biomedical Engineering Society (BMES) Annual Conference, September, 2013. Seattle, WA.

High-resolution characterization of vein deformation under arterial blood pressure. Gomez AD, Watson B, Li H, Zhuplatov I, Hsu EW, Shiu Y-T. Biomedical Engineering Society (BMES) Annual Conference. September, 2013. Seattle, WA.

Fluidic performance via intrinsic parameters of a magnetically levitated axial flow VAD. Olles MW, Gomez AD, Olsen DB, Day SW. Annual Conference of the American Society for Artificial Internal Organs (ASAIO). May, 2010. Baltimore, MD.

Acute animal experiments of a magnetically levitated axial flow VAD. Day SW, Olles MW, Cheng S, Gomez AD, Kipp RW, Joyce LD, Olsen DB. Annual Conference of the American Society for Artificial Internal Organs (ASAIO). May, 2010. Baltimore, MD.

Diamagnetic effects of blood in a magnetically levitated blood pump. Gomez AD, Day SW. American Society of Mechanical Engineers (ASME): Design of Medical Devices Conference. June 2009. Minneapolis, MN.

Control system of a magnetically levitated blood pump. Gomez AD, Day SW, Crassidis AL. Annual Conference of the American Society for Artificial Internal Organs (ASAIO). May, 2009 Dallas, TX.

Single flow path axial flow lev-VAD. Day SW, Olles MW, Gomez AD, Kipp RW, Olsen DB. Annual Conference of the American Society for Artificial Internal Organs (ASAIO). May, 2009 Dallas, TX