Kurt Schilling, Derek Archer, Francois Rheault, Ilwoo Lyu, Yuankai Huo, Leon Cai, Silvia Bunge, Kevin Weiner, John Gore, Adam Anderson, Bennett Landman: Superficial white matter across the lifespan: volume, thickness, change, and relationship with cortical features, Brain Structure and Function, 228, 1019-1031, 2023 [DOI]

Zachary Stoebner, Kilian Hett, Ilwoo Lyu, Hans Johnson, Jane Paulsen, Jeffrey Long, Ipek Oguz: Comprehensive shape analysis of the cortex in Huntington’s disease, Human Brain Mapping, 44(4), 1417-1431, 2023 [DOI]

Yue Liu, Shunxing Bao, Dario Englot, Victoria Morgan, Warren Taylor, Ying Wei, Ipek Oguz, Bennett Landman, Ilwoo Lyu: Hierarchical particle optimization for cortical shape correspondence in temporal lobe resection, Computers in Biology and Medicine, 152, 106414, 2023 [DOI]

Shunxing Bao, Brian Boyd, Praitayini Kanakaraj, Karthik Ramadass,  Francisco Meyer, Yuqian Liu, William Duett, Yuankai Huo, Ilwoo Lyu, David Zald, Seth Smith, Baxter Rogers, Bennett Landman: Integrating the BIDS neuroimaging data format and workflow optimization for large-scale medical image analysis, Journal of Digital Imaging, 35(6), 1576-1589, 2022 [DOI]

Abel Worku Tessema, Hansol Lee, Yelim Gong, HwaPyeong Cho, Hamdia Murad Adem, Ilwoo Lyu, Jae-Hyeok Lee, HyungJoon Cho: Automated volumetric determination of high R₂* regions in substantia nigra: a feasibility study of quantifying substantia nigra atrophy in progressive supranuclear palsy, NMR in Biomedicine, 35(11), e4795, 2022 [DOI]

Seungbo Ha, Ilwoo Lyu: SPHARM-Net: Spherical Harmonics-based Convolution for Cortical Parcellation, IEEE Transactions on Medical Imaging, 41(10), 2739-2751, 2022 [DOI]

Ethan Willbrand, Benjamin Parker, Willa Voorhies, Jacob Miller, Ilwoo Lyu, Tyler Hallock, Lyndsey Aponik-Gremillion, Seth Koslov, Alzheimer's Disease Neuroimaging Initiative, Silvia Bunge, Brett Foster, Kevin Weiner: Uncovering a tripartite landmark in posterior cingulate cortex, Science Advances, 8(36), eabn9516, 2022 [DOI]

Maxwell Roeske, Ilwoo Lyu, Maureen McHugo, Jeniffer Blackford, Neil Woodward, Stephan Heckers: Incomplete hippocampal inversion determines hippocampal shape deformations in schizophrenia, Biological Psychiatry, 92(4), 314-322, 2022 [DOI][Cover Image]

Yue Liu, Yuankai Huo, Blake Dewey, Ying Wei, Ilwoo Lyu, Bennett Landman: Generalizing Deep Learning Brain Segmentation for Skull Removal and Intra-Cranial Measurements, Magnetic Resonance Imaging, 88, 44-52, 2022 [DOI]

Alisa Zoltowski, Ilwoo Lyu, Michelle Failla, Lisa Mash, Kacie Dunham, Jacob Feldman, Tiffany Woynaroski, Mark Wallace, Laura Barquero, Tin Nguyen, Laurie Cutting, Hakmook Kang, Bennett Landman, Carissa Cascio: Cortical morphology in ASD: findings from a cortical shape-adaptive approach to gyrification indexing, Cerebral Cortex, 31(11), 5188-5205, 2021 [DOI]

Yucheng Tang, Riqiang Gao, Shizhong Han, Yunqiang Chen, Dashan Gao, Vishwesh Nath, Camilo Bermudez, Michael R Savona, Shunxing Bao, Ilwoo Lyu, Yuankai Huo, Bennett A Landman: Body Part Regression with Self-supervision, IEEE Transactions on Medical Imaging, 40(5), 1499-1507, 2021 [DOI]

Killian Hett, Ilwoo Lyu, Paula Trujillo Diaz, Alexander Lopez, Megan Aumann, Kathleen Larson, Peter Hedera, Benoit Dawant, Bennett Landman, Daniel Claassen, Ipek Oguz: Anatomical texture patterns identify cerebellar distinctions between essential tremor and Parkinson's disease, Human Brain Mapping, 42(8), 2322-2331, 2021 [DOI]

Ilwoo Lyu, Shunxing Bao, Lingyan Hao, Jewelia Yao, Jacob Miller, Willa Voorhies, Warren Taylor, Silvia Bunge, Kevin Weiner, Bennett Landman: Labeling Lateral Prefrontal Sulci using Spherical Data Augmentation and Context-aware Training, NeuroImage, 229, 117758, 2021 [DOI] 

Yucheng Tang, Riqiang Gao, Ho Hin Lee, Shizhong Han, Yunqiang Chen, Dashan Gao, Vishwesh Nath, Camilo Bermudez, Michael Savona, Richard Abramson, Shunxing Bao, Ilwoo Lyu, Yuankai Huo, Bennett Landman: High-resolution 3D Abdominal Segmentation with Random Patch Network Fusion, Medical Image Analysis, 69, 101894, 2021 [DOI]

Colin Hansen, Qi Yang, Ilwoo Lyu, Francois Rheault, Cailey Kerley, Bramsh Qamar Chandio, Shreyas Fadnavis, Owen Williams, Andrea Shafer, Susan Resnick, David Zald, Laurie Cutting, Warren Taylor, Brian Boyd, Eleftherios Garyfallidis, Adam Anderson, Maxime Descoteaux, Bennett Landman, Kurt Schilling: Pandora: 4-D white matter bundle population-based atlases derived from diffusion MRI fiber tractography, Neuroinformatics, 2020 [DOI]

Shih-Gu Huang, Ilwoo Lyu, Anqi Qiu, Moo Chung: Fast Polynomial Approximation of Heat Kernel Convolution on Manifolds and Its Application to Brain Sulcal and Gyral Graph Pattern Analysis, IEEE Transactions on Medical Imaging, 39(6), 2201-2212, 2020 [DOI]

Rui Wang, Kimberly Albert, Warren Taylor, Brian Boyd, Justin Blaber, Ilwoo Lyu, Bennett Landman, Jennifer Vega, Sepideh Shokouhi, Hakmook Kang: A Bayesian Approach to Examining Default Mode Network Functional Connectivity and Cognitive Performance in Major Depressive Disorder, Psychiatry Research: Neuroimaging, 301, 111102, 2020 [DOI]

Aaron Tetreault, Tony Phan, Dana Orlando, Ilwoo Lyu, Hakmook Kang, Bennett Landman, Ryan Darby: Network localization of clinical, cognitive, and neuropsychiatric symptoms in Alzheimer's disease, Brain, 143(4), 1249-1260, 2020 [DOI]

Vishwesh Nath, Kurt Schilling, Prasanna Parvathaneni, Colin Hansen, Allison Hainline, Yuankai Huo, Justin Blaber, Ilwoo Lyu, Vaibhav Janve, Yurui Gao, Iwona Stepniewska, Adam Anderson, Bennett Landman: Deep Learning Reveals Untapped Information for Local White-matter Fiber Reconstruction in Diffusion-weighted MRI, Magnetic Resonance Imaging, 62, 220-227, 2019 [DOI]

Ilwoo Lyu, Hakmook Kang, Neil Woodward, Martin Styner, Bennett Landman: Hierarchical Spherical Deformation for Cortical Surface Registration, Medical Image Analysis, 57, 72-88, 2019 [DOI]

Prasanna Parvathaneni, Vishwesh Nath, Maureen McHugo, Yuankai Huo, Susan Resnick, Neil Woodward, Bennett Landman, Ilwoo Lyu: Improving Human Cortical Sulcal Curve Labeling in Large Scale Cross-Sectional MRI using Deep Neural Networks, Journal of Neuroscience Methods, 324, 108311, 2019 [DOI]

Prasanna Parvathaneni, Ilwoo Lyu, Yuankai Huo, Baxter Rogers, Kurt Schilling, Vishwish Nath, Justin Blaber, Allison Hainline, Adam Anderson, Neil Woodward, Bennett Landman: Improved Gray Matter Surface based Spatial Statistics in Neuroimaging Studies, Magnetic Resonance Imaging, 61, 285-295, 2019 [DOI]

Shunxing Bao, Camilo Bermudez, Yuankai Huo, Prasanna Parvathaneni, William Rodriguez, Susan Resnick, Pierre-Francois D'Haese, Maureen McHugo, Stephan Heckers, Benoit Dawant, Ilwoo Lyu, Bennett Landman: Registration-based Image Enhancement Improves Multi-Atlas Segmentation of the Thalamic Nuclei and Hippocampal Subfields, Magnetic Resonance Imaging, 59, 143-152, 2019 [DOI]

Ilwoo Lyu, Sun Hyung Kim, Jessica Girault, John Gilmore, Martin Styner: A Cortical Shape-Adaptive Approach to Local Gyrification Index, Medical Image Analysis, 48, 244-258, 2018 [DOI]

Ilwoo Lyu, Sun Hyung Kim, Neil Woodward, Martin Styner, Bennett Landman: TRACE: A Topological Graph Representation for Automatic Sulcal Curve Extraction, IEEE Transactions on Medical Imaging, 37(7), 1653-1663, 2018 [DOI]

Yuankai Huo, Justin Blaber, Stephen Damon, Brian Boyd, Shunxing Bao, Prasanna Parvathaneni, Camilo Bermudez Noguera, Shikha Chaganti, Vishwesh Nath, Jasmine Greer, Ilwoo Lyu, William French, Allen Newton, Baxter Rogers, Bennett Landman: Towards Portable Large-Scale Image Processing with High-Performance Computing, Journal of Digital Imaging, 31(3), 304-314, 2018 [DOI]

Sun Hyung Kim, Ilwoo Lyu, Vladimir Fonov, Clement Vachet, Heather Hazlett, Rachel Smith, Joseph Piven, Stephen Dager, Robert McKinstry, John Pruett Jr, Alan Evans, Louis Collins, Kelly Botteron, Robert Schultz, Guido Gerig, Martin Styner, The IBIS Network: Development of Cortical Shape in the Human Brain from 6 to 24 Months of Age via a Novel Measure of Shape Complexity, NeuroImage, 135, 163-176, 2016 [DOI]

Ilwoo Lyu, Sun Hyung Kim, Joon-Kyung Seong, Sang Wook Yoo, Alan Evans, Yundi Shi, Mar Sanchez, Marc Niethammer, Martin Styner: Robust Estimation of Group-wise Cortical Correspondence with an Application to Macaque and Human Neuroimaging Studies, Frontiers in Neuroscience, 9, 210, 2015 [DOI] 

Ilwoo Lyu, Joon-Kyung Seong, Sung Yong Shin, Kiho Im, Jee Hoon Roh, Min-Jeong Kim, Geon Ha Kim, Jong Hun Kim, Alan Evans, Duk L. Na, Jong-Min Lee: Spectral-based Automatic Labeling and Refining of Human Cortical Sulcal Curves using Expert-Provided Examples, NeuroImage, 52(1), 142-157, 2010 [DOI]

Seungeun Lee, Sunghwa Ryu, Seunghwan Lee, Ilwoo Lyu: Unsupervised Learning of Cortical Surface Registration Using Spherical Harmonics, MICCAI Workshop on Shape in Medical Imaging (ShapeMI) 2023, LNCS14350, 65-74, Vancouver, Canada, 2023 [DOI]

Roza Bayrak, Ilwoo Lyu, Catie Chang: Learning Subject-Specific Functional Parcellations from Cortical Surface Measures, MICCAI Workshop on PRedictive Intelligence In MEdicine (PRIME) 2022, LNCS13564, 172-180, Singapore, 2022 [DOI]

Karthik Ramadass, Francois Rheault, Leon Cai, Lucas Remedios, Micah DArchangel, Ilwoo Lyu, Laura Barquero, Allen Newton, Laurie Cutting, Yuankai Huo, Bennett Landman: Ultra-high-resolution Mapping of Cortical Layers 3T-Guided 7T MRI, SPIE Medical Imaging 2022, SPIE12032, 120321G, San Diego, California, USA, 2022, oral presentation [DOI]

Roza Bayrak, Colin Hansen, Jorge Salas, Nafis Ahmed, Ilwoo Lyu, Yuankai Huo, Catie Chang: From Brain to Body: Learning Low-Frequency Respiration and Cardiac Signals from fMRI Dynamics, Medical Image Computing and Computer Assisted Intervention (MICCAI) 2021, LNCS12907, 553-563, Strasbourg, France, 2021 [DOI]

Shunxing Bao, Yucheng Tang, Ho Hin Lee, Riqiang Gao, Sophie Chiron, Ilwoo Lyu, Lori Coburn, Keith Wilson, Joseph Roland, Bennett Landman, Yuankai Huo: Random Multi-Channel Image Synthesis for Multiplexed Immunofluorescence Imaging, MICCAI Workshop on Computational Pathology (COMPAY) 2021, PMLR156, 1-11, Strasbourg, France, 2021 [DOI]

Yue Liu, Dario Englot, Victoria Morgan, Warren Taylor, Ying Wei, Ipek Oguz, Bennett Landman, Ilwoo Lyu: Establishing Surface Correspondence for Post-surgical Cortical Thickness Changes in Temporal Lobe Epilepsy, SPIE Medical Imaging 2021, SPIE11596, 115960Y, Houston, Texas, USA, 2021, oral presentation [DOI]

Chang Yu, Yue Liu, Leon Cai, Cailey Kerley, Kaiwen Xu, Katherine Aboud, Warren Taylor, Hakmook Kang, Andrea Shafer, Lori Beason-Held, Susan Resnick, Bennett Landman, Ilwoo Lyu: Validation of group-wise registration for surface-based functional MRI analysis, SPIE Medical Imaging 2021, SPIE11596, 115960X, Houston, Texas, USA, 2021 [DOI]

Leon Cai, Cailey Kerley, Chang Yu, Katherine Aboud, Lori Beason-Held, Andrea Shafer, Susan Resnick, Lori Jordan, Adam Anderson, Kurt Schilling, Ilwoo Lyu, Bennett Landman: Joint cortical surface and structural connectivity analysis of Alzheimer's Disease, SPIE Medical Imaging 2021, SPIE11596, 1159630, Houston, Texas, USA, 2021, oral presentation [DOI]

Lingyan Hao, Shunxing Bao, Yucheng Tang, Riqiang Gao, Prasanna Parvathaneni, Jacob Miller, Willa Voorhies, Jewelia Yao, Silvia Bunge, Kevin Weiner, Bennett Landman, Ilwoo Lyu: Automatic Labeling of Cortical Sulci using Convolutional Neural Networks in a Developmental Cohort, IEEE International Symposium on Biomedical Imaging (ISBI) 2020, IEEE, 412-415, Iowa City, Iowa, USA, 2020 [DOI]

Prasanna Parvathaneni, Shunxing Bao, Vishwesh Nath, Neil Woodward, Daniel Claassen, Carissa Cascio, David Zald, Yuankai Huo, Bennett Landman, Ilwoo Lyu: Cortical Surface Parcellation using Spherical Convolutional Neural Networks, Medical Image Computing and Computer Assisted Intervention (MICCAI) 2019, LNCS11766, 501-509, Shenzhen, China, 2019, early accept, travel award [DOI]

Vishwesh Nath, Ilwoo Lyu, Kurt Schilling, Prasanna Parvathaneni, Colin Hansen, Yuankai Huo, Vaibhav Janve, Yurui Gao, Iwona Stepniewska, Adam Anderson, Bennett Landman: Enabling Multi-Shell b-Value Generalizability of Data-Driven Diffusion Models with Deep SHORE, Medical Image Computing and Computer Assisted Intervention (MICCAI) 2019, LNCS11766, 573-581, Shenzhen, China, 2019 [DOI]

Shih-Gu Huang, Ilwoo Lyu, Anqi Qiu, Moo Chung: Fast Polynomial Approximation to Heat Diffusion in Manifolds, Medical Image Computing and Computer Assisted Intervention (MICCAI) 2019, LNCS11767, 48-56, Shenzhen, China, 2019 [DOI]

Vishwesh Nath, Samuel Remedios, Prasanna Parvathaneni, Colin Hansen, Roza Bayrak, Camilo Bermudez, Justin Blaber, Karthik Ramadass, Kurt Schilling, Vaibhav Janve, Yurui Gao, Yuankai Huo, Ilwoo Lyu, Owen Williams, Susan Resnick, Lori Beason-Held, Baxter Rogers, Iwona Stepniewska, Adam Anderson, Bennett Landman: Harmonizing 1.5T/3T Diffusion Weighted MRI through Development of Deep Learning Stabilized Microarchitecture Estimators, SPIE Medical Imaging 2019, SPIE10949, 109490O-1-109490O-12, San Diego, California, USA, 2019, oral presentation [DOI]

Shunxing Bao, Prasanna Parvathaneni, Yuankai Huo, Yogesh Barve, Andrew Plassard, Yuang Yao, Hongyang Sun, Ilwoo Lyu, David Zald, Bennett Landman, Aniruddha Gokhale: Technology Enablers for Cloud-based Multi-level Analysis Applications in Medical Image Processing, IEEE International Conference on BigData 2018, 1337-1346, Seattle, Washington, USA, 2018 [DOI]

Ilwoo Lyu, Martin Styner, Bennett Landman: Hierarchical Spherical Deformation for Shape Correspondence, Medical Image Computing and Computer Assisted Intervention (MICCAI) 2018, LNCS11070, 853-861, Granada, Spain, 2018, early accept, oral presentation [DOI]

Vishwesh Nath, Kurt Schilling, Prasanna Parvathaneni, Colin Hansen, Allison Hainline, Camilo Bermudez, Samuel Remedios, Justin Blaber, Ilwoo Lyu, Vaibhav Janve, Yurui Gao, Iwona Stepniewska, Baxter Rogers, Allen Newton, Taylor Davis, Jeff Luci, Adam Anderson, Bennett Landman. Inter-Scanner Harmonization of High Angular Resolution DW-MRI using Null Space Deep Learning, MICCAI Workshop on Computational Diffusion MRI (CDMRI) 2018, MATHVISUAL46, 193-201, Granada, Spain, 2018 [DOI]

Prasanna Parvathaneni, Shunxing Bao, Allison Hainline, Yuankai Huo, Kurt Schilling, Hakmook Kang, Owen Williams, Neil Woodward, Susan Resnick, David Zald, Ilwoo Lyu, Bennett Landman: Harmonization of White and Gray Matter Features in Diffusion Microarchitecture for Cross Sectional Studies, International Conference on Clinical and Medical Image Analysis (ICCMIA) 2018, LNCVB31, 21-29, Coimbatore, Tamilnadu, India, 2018 [DOI]

Meg Bobo, Shunxing Bao, Yuankai Huo, Yuang Yao, Jack Virostko, Andrew Plassard, Ilwoo Lyu, Albert Assad, Richard Abramson, Bennett Landman: Fully Convolutional Neural Networks Improve Abdominal Organ Segmentation,SPIE Medical Imaging 2018, SPIE10574, 105742V-1-105742V-8, Houston, Texas, USA, 2018, best poster award [DOI]

Vishwesh Nath, Kurt Schilling, Allison Hainline, Prasanna Parvathaneni, Justin Blaber, Ilwoo Lyu, Adam Anderson, Hakmook Kang, Allen Newton, Baxter Rogers, Bennett Landman: SHARD: Spherical Harmonic based Robust Outlier Detection for HARDI Methods, SPIE Medical Imaging 2018, SPIE10574, 105740X-1-105740X-11, Houston, Texas, USA, 2018, oral presentation [DOI]

Shunxing Bao, Yuankai Huo, Prasanna Parvathaneni, Andrew Plassard, Camilo Bermudez, Yuang Yao, Ilwoo Lyu, Aniruddha Gokhale, Bennett Landman: A Data Colocation Grid Framework for Big Data Medical Image Processing – Backend Design, SPIE Medical Imaging 2018, SPIE10579, 105790A-1-105790A-10, Houston, Texas, USA, 2018, oral presentation [DOI]

Prasanna Parvathaneni, Ilwoo Lyu, Yuankai Huo, Justin Blaber, Allison Hainline, Hakmook Kang, Neil Woodward, Bennett Landman: Constructing Statistically Unbiased Cortical Surface Templates Using Feature-Space Covariance, SPIE Medical Imaging 2018, SPIE10574, 1057406-1-1057406-9, Houston, Texas, USA, 2018, oral presentation [DOI]

Ilwoo Lyu, Hakmook Kang, Neil Woodward, Bennett Landman: Sulcal Depth-based Cortical Shape Analysis in Normal Healthy Control and Schizophrenia Groups, SPIE Medical Imaging 2018, SPIE10574, 1057402-1-1057402-8, Houston, Texas, USA, 2018, oral presentation [DOI]

Ilwoo Lyu, Jonathan Perdomo, Gabriel Yapuncich, Beatriz Paniagua, Doug Boyer, Martin Styner: Group-wise Shape Correspondence of Variable and Complex Objects, SPIE Medical Imaging 2018, SPIE10574, 105742T-1-105742T-7, Houston, Texas, USA, 2018 [DOI]

Ilwoo Lyu, Sun Hyung Kim, Jessica Bullins, John Gilmore, Martin Styner: Novel Local Shape-Adaptive Gyrification Index with Application to Brain Development, Medical Image Computing and Computer Assisted Intervention (MICCAI) 2017, LNCS10433, 31-39, Quebec City, Quebec, Canada, 2017 [DOI]

Ilwoo Lyu, Sun Hyung Kim, Martin Styner: Cortical Surface Shape Assessment via Sulcal/Gyral Curve-based Gyrification Index, IEEE International Symposium on Biomedical Imaging (ISBI) 2016, IEEE, 221-224, Prague, Czech Republic, 2016, oral presentation, finalist for best student award [DOI]

Ilwoo Lyu, Sun Hyung Kim, Martin Styner: Automatic Sulcal Curve Extraction on the Human Cortical Surface,SPIE Medical Imaging 2015, SPIE9413, 94130P-1-94130P-7, Orlando, Florida, USA, 2015, oral presentation [DOI]

Joohwi Lee, Ilwoo Lyu, Martin Styner: Multi-atlas Segmentation with Particle-based Group-wise Image Registration, SPIE Medical Imaging 2014, SPIE9034, 903447-1-903447-8, San Diego, California, USA, 2014 [DOI]

Manasi Datar, Ilwoo Lyu, Sun Hyung Kim, Joshua Cates, Martin Styner, Ross Whitaker: Geodesic Distances to Landmarks for Dense Correspondence on Ensembles of Complex Shapes, Medical Image Computing and Computer Assisted Intervention (MICCAI) 2013, LNCS8150, 19-26, Nagoya, Japan, 2013, oral presentation [DOI]

Joohwi Lee, Ilwoo Lyu, Ipek Oguz, Martin Styner: Particle-Guided Image Registration, Medical Image Computing and Computer Assisted Intervention (MICCAI) 2013, LNCS8151, 203-210, Nagoya, Japan, 2013 [DOI]

Ilwoo Lyu, Sun Hyung Kim, Joon-Kyung Seong, Sang Wook Yoo, Alan Evans, Yundi Shi, Mar Sanchez, Marc Niethammer, Martin Styner. Cortical Correspondence via Sulcal Curve-Constrained Spherical Registration with Application to Macaque Studies, SPIE Medical Imaging 2013, SPIE8669, 86692X-1-86692X-7, Orlando, Florida, USA, 2013 [DOI]

Ilwoo Lyu, Sun Hyung Kim, Joon-Kyung Seong, Sang Wook Yoo, Alan Evans, Yundi Shi, Mar Sanchez, Marc Niethammer, Martin Styner: Group-Wise Cortical Correspondence via Sulcal Curve-Constrained Entropy Minimization, Information Processing in Medical Imaging (IPMI) 2013, LNCS7917, 364-375, Asilomar, California, USA, 2013, oral presentation with open-ended discussion [DOI]

Ilwoo Lyu, Gang Li, Min-Jeong Kim, Dinggang Shen: Multiple Atlases-based Joint Labeling of Human Cortical Sulcal Curves, MICCAI Workshop on Medical Computer Vision (MCV) 2012, LNCS7766, 124-132, Nice, France, 2012 [DOI]