–== Segmentation | Registration | Atlas | Surface Mapping | fMRI | DTI | Early Development ==–

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Segmentation:

  1. LINKS: Learning-based multi-source IntegratioN frameworK for Segmentation of infant brain images”, Neuroimage 108:160-172, 2015. [Li Wang, Yaozong Gao, Feng Shi, Gang Li, John H. Gilmore, Weili Lin, Dinggang Shen]
  2. Integration of Sparse Multi-modality Representation and Anatomical Constraint for Isointense Infant Brain MR Image Segmentation“, Neuroimage 89:152-164, 2014. [Li Wang, Feng Shi, Yaozong Gao, Gang Li, John H. Gilmore, Weili Lin, Dinggang Shen]
  3. Segmentation of Neonatal Brain MR Images using Patch-Driven Level Sets“, Neuroimage 84:141-158, 2014. [Li Wang, Feng Shi, Gang Li, Yaozong Gao, Weili Lin, John H. Gilmore, Dinggang Shen]
  4. Concatenated Spatially-localized Random Forests for Hippocampus Labeling in Adult and Infant MR Brain Images”, Neurocomputing, 2016. [Lichi Zhang, Qian Wang, Yaozong Gao, Hongxin Li, Guorong Wu, Dinggang Shen]
  5. Scalable Joint Segmentation and Registration Framework for Infant Brain Images”, Neurocomputing, 2016. [Pei Dong, Li Wang, Weili Lin, Dinggang Shen*, Guorong Wu*] * Co-corresponding authors
  6. Deep Convolutional Neural Networks for Multi-Modality Isointense Infant Brain Image Segmentation”, Neuroimage 108:214-224, 2015. [Wenlu Zhang, Rongjian Li, Houtao Deng, Li Wang, Weili Lin, Shuiwang Ji, Dinggang Shen]
  7. iBEAT: A Toolbox for Infant Brain Magnetic Resonance Image Processing“, Neuroinformatics 11:211–225, 2013. [Yakang Dai, Feng Shi, Li Wang, Guorong Wu, Dinggang Shen]
  8. 4D Multi-Modality Tissue Segmentation of Serial Infant Images“, PLoS ONE 7(9): e44596, 2012. [Li Wang, Feng Shi, Pew-Thian Yap, John H. Gilmore, Weili Lin, Dinggang Shen]
  9. Longitudinally Guided Level Sets for Consistent Tissue Segmentation of Neonates”, Human Brain Mapping 34(4):956-972, 2013. [Li Wang, Feng Shi, Pew-Thian Yap, Weili Lin, John H. Gilmore, and Dinggang Shen]
  10. Automatic Segmentation of Neonatal Images Using Convex Optimization and Coupled Level Sets“, NeuroImage, 58:805-817, Jul. 2011. [Li Wang, Feng Shi, Weili Lin, John H. Gilmore, Dinggang Shen]
  11. CENTS: Cortical Enhanced Neonatal Tissue Segmentation“, Human Brain Mapping, 32:382–396, Mar. 2011. [Feng Shi, Dinggang Shen, Pew-Thian Yap, Yong Fan, Jie-Zhi Cheng, Hongyu An, Lawrence L. Wald, Guido Gerig, John H. Gilmore, and Weili Lin]
  12. Construction of Multi-Region-Multi-Reference Atlases for Neonatal Brain MRI Segmentation“, NeuroImage, 51(2):684-693, Jun 2010. [Feng Shi, Pew-Thian Yap, Yong Fan, John H Gilmore, Weili Lin, Dinggang Shen]
  13. Neonatal brain image segmentation in longitudinal MRI studies“, Neuroimage, 49(1):391-400, Jan 2010. [Feng Shi, Yong Fan, Songyuan Tang, John H. Gilmore, Weili Lin, Dinggang Shen]

Registration:

  1. Learning-based Deformable Image Registration for Infant MR Images in the First Year of Life”, Medical Physics, 44(1):158-170, 2017. [Shunbo Hu, Lifang Wei, Yaozong Gao, Yanrong Guo, Guorong Wu, Dinggang Shen]
  2. Scalable Joint Segmentation and Registration Framework for Infant Brain Images”, Neurocomputing, 2016. [Pei Dong, Li Wang, Weili Lin, Dinggang Shen*, Guorong Wu*] * Co-corresponding authors
  3. Hierarchical and Symmetric Infant Image Registration by Robust Longitudinal-Example-Guided Correspondence Detection”, Medical Physics 42(7):4174-4189, 2015. [Yao Wu, Guorong Wu, Li Wang, Brent C. Munsell, Qian Wang, Weili Lin, Qianjin Feng, Wufan Chen, Dinggang Shen]

Infant Atlas:

  1. Consistent Spatial-Temporal Longitudinal Atlas Construction for Developing Infant Brains”, IEEE Transactions on Medical Imaging, 2016. [Yuyao Zhang, Feng Shi, Guorong Wu, Li Wang, Pew-Thian Yap, Dinggang Shen]
  2. “Spatio-Angular Consistent Construction of Neonatal Diffusion MRI Atlases”, Human Brain Mapping, 2017. [Behrouz Saghafi∗, Jaeil Kim∗, Geng Chen, Feng Shi, Weili Lin, Pew-Thian Yap, Dinggang Shen] * Co-first authors.
  3. Detail-Preserving Construction of Neonatal Brain Atlases in Space-Frequency Domain”, Human Brain Mapping 37(6):2133-2150, 2016. [Yuyao Zhang, Feng Shi, Pew-Thian Yap, Dinggang Shen]
  4. Construction of 4D High-definition Cortical Surface Atlases of Infants: Methods and Applications”, Medical Image Analysis 25(1):22-36, 2015. [Gang Li, Li Wang, Feng Shi, John H. Gilmore, Weili Lin, Dinggang Shen]
  5. Neonatal Atlas Construction Using Sparse Representation”, Human Brain Mapping 35(9):4663-4677, 2014. [Feng Shi, Li Wang, Guorong Wu, Gang Li, John H. Gilmore, Weili Lin, Dinggang Shen]
  6. Infant Brain Atlases from Neonates to 1- and 2-year-olds“, PLoS ONE, 6(4): e18746, Apr. 2011. [Feng Shi, Pew-Thian Yap, Guorong Wu, Hongjun Jia, John H. Gilmore, WeiliLin, Dinggang Shen] (free software package available)

Surface Mapping:

  1. Joint Prediction of Longitudinal Development of Cortical Surfaces and White Matter Fibers from Neonatal MRI”, NeuroImage, 2017. [Islem Rekik, Gang Li, Yap Pew-Thian, Geng Chen, Weili Lin, Dinggang Shen]
  2. Can we predict subject-specific dynamic cortical thickness maps during infancy from birth?”, Human Brain Mapping, 2017. [Yu Meng, Gang Li, Islem Rekik, Han Zhang, Yaozong Gao, Weili Lin, Dinggang Shen]
  3. Biomechanical Analysis of Normal Brain Development during the First Year of Life Using Finite Strain Theory”, Scientific Reports, 2016. [Jeong Chul Kim, Li Wang, Dinggang Shen, Weili Lin]
  4. Learning-based Subject-specific Estimation of Dynamic Maps of Cortical Morphology at Missing Time Points in Longitudinal Infant Studies”, Human Brain Mapping, 2016. [Yu Meng, Gang Li, Yaozong Gao, Weili Lin, Dinggang Shen]
  5. Predicting Infant Cortical Surface Development Using a 4D Varifold-based Learning Framework and Local Topography-based Shape Morphing”, Medical Image Analysis 28:1-12, 2016. [Islem Rekik, Gang Li, Weili Lin, Dinggang Shen]
  6. Spatial Patterns, Longitudinal Development, and Hemispheric Asymmetries of Cortical Thickness in Infants from Birth to 2 Years of Age”, Journal of Neuroscience 35(24):9150-9162, 2015. [Gang Li, Weili Lin, John H. Gilmore, Dinggang Shen]
  7. Construction of 4D High-definition Cortical Surface Atlases of Infants: Methods and Applications”, Medical Image Analysis 25(1):22-36, 2015. [Gang Li, Li Wang, Feng Shi, John H. Gilmore, Weili Lin, Dinggang Shen]
  8. Cortical Thickness and Surface Area in Neonates at High Risk for Schizophrenia”, Brain Structure and Function 221(1):447-461, 2016. [Gang Li, Li Wang, Feng Shi, Amanda E. Lyall, Mihye Ahn, Ziwen Peng, Hongtu Zhu, Weili Lin, John H. Gilmore, Dinggang Shen]
  9. Simultaneous and Consistent Labeling of Longitudinal Dynamic Developing Cortical Surfaces in Infants”, Medical Image Analysis 18(8):1274-1289, 2014. [Gang Li, Li Wang, Feng Shi, Weili Lin, Dinggang Shen]
  10. Spatial Distribution and Longitudinal Development of Deep Cortical Sulcal Landmarks in Infants”, Neuroimage 100:206-218, 2014. [Yu Meng, Gang Li, Weili Lin, John H Gilmore, Dinggang Shen]
  11. Mapping Longitudinal Development of Local Cortical Gyrification in Infants from Birth to 2 Years of Age”, Journal of Neuroscience 34(12):4228–4238, 2014. [Gang Li, Li Wang, Feng Shi, Amanda E Lyall, Weili Lin, John H Gilmore, Dinggang Shen]
  12. Measuring the Dynamic Longitudinal Cortex Development in Infants by Reconstruction of Temporally Consistent Cortical Surfaces“, NeuroImage 90:266-279, 2014. [Gang Li, Jingxin Nie, Li Wang, Feng Shi, John H. Gilmore, Weili Lin, Dinggang Shen]
  13. Mapping Longitudinal Hemispheric Structural Asymmetries of the Human Cerebral Cortex from Birth to 2 Years of Age“, Cerebral Cortex 24:1289-1300, 2014. [Gang Li, Jingxin Nie, Li Wang, Feng Shi, Amanda E. Lyall, Weili Lin, John H. Gilmore, Dinggang Shen]
  14. Mapping Region-specific Longitudinal Cortical Surface Expansion from Birth to 2 Years Old“, Cerebral Cortex 23(11):2724-2733, 2013. [Gang Li, Jingxin Nie, Li Wang, Feng Shi, Weili Lin, John H. Gilmore, Dinggang Shen]
  15. Consistent Sulcal Parcellation of Longitudinal Cortical Surfaces“, NeuroImage, 57(1):76-88, Jul. 2011. [Gang Li, Dinggang Shen]

fMRI:

  1. “Functional Connectivity of the Infant Human Brain: Plastic and Modifiable”. The Neuroscientist 2017, Vol. 23(2) 169–184, [Wei Gao, Weili Lin, Karen Grewen, John H Gilmore]
  2. “Prenatal Drug Exposure Affects Neonatal Brain Functional Connectivity”. Journal of Neuroscience 8 April 2015, 35 (14) 5860-5869; DOI: https://doi.org/10.1523/JNEUROSCI.4333-14.2015. [Andrew P. Salzwedel, Karen M. Grewen, Clement Vachet, Guido Gerig, Weili Lin, Wei Gao] ~ Featured on Science Daily
  3. “Frequency of Spontaneous BOLD Signal Shifts during Infancy and Correlates with Cognitive Performance”. Developmental Cognitive Neuroscience  Volume 12, April 2015, Pages 40–50, [Sarael Alcauter, Weili Lin, J Keith Smith, Barbara D. Goldman, J. Steven Reznick, John H Gilmore, Wei Gao]
  4. “Development of Thalamocortical Connectivity during Infancy and Its Cognitive Correlations.” Journal of Neuroscience: 34(27):9067–9075, 2014. [Sarael Alcauter, Weili Lin, J Keith Smith, Sarah J. Short, Barbara D. Goldman, J. Steven Reznick, John H Gilmore, Wei Gao]
  5. Functional Network Development during the First Year: Relative Sequence and Socioeconomic Correlations”. Cereb Cortex. 2015 Sep;25(9):2919-28. doi: 10.1093/cercor/bhu088., [Wei Gao, Sarael Alcauter, Amanda Elton, Keith Smith, Juanita Ramirez, Weili Lin]
  6. “Development of Human Brain Cortical Network Architecture during Infancy”. Brain Struct Funct. 2015 Mar;220(2):1173-86. doi: 10.1007/s00429-014-0710-3. Epub 2014 Jan 28., [Wei Gao, Sarael Alcauter,John H Gilmore, Keith Smith, Weili Lin]
  7. “Consistent Anterior-Posterior Segregation of the Insula during the First Two Years of Life”. Cereb Cortex. 2015 May;25(5):1176-87. doi: 10.1093/cercor/bht312. Epub 2013 Nov 17., [Sarael Alcauter, Weili Lin, J Keith Smith, John H Gilmore, Wei Gao]
  8. The Synchronization within and Interaction between the Default and Dorsal Attention Networks in Early Infancy”. Cerebral Cortex. 2012 doi: 10.1093/cercor/bhs04, [Wei Gao, John H Gilmore, Dinggang Shen, J Keith Smith, Hongtu Zhu, Weili Lin]
  9. Temporal and Spatial Evolution of Brain Network Topology during the First Two Years of Life”. PLoS One, 6(9): e25278. 2011.[Wei Gao, John H Gilmore, Kelly S. Giovanello, J Keith Smith, Dinggang Shen, Hongtu Zhu, Weili Lin]
  10. Evidence on the emergence of the brain’s default network from 2-week-old to 2-year-old healthy pediatric subjects”. Proceedings of the National Academy of Sciences (PNAS), Vol.106, No.16. 6790-6795, 2009. [Wei Gao, Hongtu Zhu, Kelly S. Giovanello, J Keith Smith, Dinggang Shen, John H Gilmore, Weili Li]

DTI:

  1. “Spatio-Angular Consistent Construction of Neonatal Diffusion MRI Atlases”, Human Brain Mapping, 2017. [Behrouz Saghafi∗, Jaeil Kim∗, Geng Chen, Feng Shi, Weili Lin, Pew-Thian Yap, Dinggang Shen] * Co-first authors.
  2. Joint Prediction of Longitudinal Development of Cortical Surfaces and White Matter Fibers from Neonatal MRI”, NeuroImage, 2017. [Islem Rekik, Gang Li, Yap Pew-Thian, Geng Chen, Weili Lin, Dinggang Shen]
  3. Spatiotemporal Patterns of Cortical Fiber Density in Developing Infants, and Their Relationship with Cortical Thickness”, Human Brain Mapping 36(12):5183-5195, 2015. [Gang Li, Tianming Liu, Dong Ni, Weili Lin, John H. Gilmore, Dinggang Shen]
  4. Altered Structural Connectivity in Neonates at Genetic Risk for Schizophrenia: A Combined Study Using Morphological and White Matter Networks“, Neuroimage 62(3):1622–1633, Sep. 2012. [Feng Shi, Pew-Thian Yap, Wei Gao, Weili Lin, John H Gilmore, Dinggang Shen]
  5. Temporal and Spatial Evolution of Brain Network Topology during the First Two Years of Life”, PLoS ONE 6(9): e25278, Sep. 2011. [Wei Gao, John H Gilmore, Kelly S Giovanello, Jeffery Keith Smith, Dinggang Shen, Hongtu Zhu, and Weili Lin]
  6. Development Trends of White Matter Connectivity in the First Years of Life”, PLoS ONE, vol. 6, no. 9, pp. e24678, 2011. [Pew-Thian Yap, Yong Fan, Yasheng Chen, John Gilmore, Weili Lin, Dinggang Shen]
  7. Longitudinal regression analysis of spatial–temporal growth patterns of geometrical diffusion measures in early postnatal brain development with diffusion tensor imaging“, Neuroimage, 58(4):993–1005, Oct. 2011. [Yasheng Chen, Hongyu An, Hongtu Zhu, Valerie Jewells, Diane Armao, Dinggang Shen, John H. Gilmore, and Weili Lin]

Early Brain Development:

  1. Structural and Maturational Covariance in Early Childhood Brain Development”, Cerebral Cortex, 2016. [Xiujuan Geng, Gang Li, Zhaohua Lu, Wei Gao, Li Wang, Dinggang Shen, Hongtu Zhu, John H Gilmore]
  2. Predicting Infant Cortical Surface Development Using a 4D Varifold-based Learning Framework and Local Topography-based Shape Morphing”, Medical Image Analysis 28:1-12, 2016. [Islem Rekik, Gang Li, Weili Lin, Dinggang Shen]
  3. Spatial Patterns, Longitudinal Development, and Hemispheric Asymmetries of Cortical Thickness in Infants from Birth to 2 Years of Age”, Journal of Neuroscience 35(24):9150-9162, 2015. [Gang Li, Weili Lin, John H. Gilmore, Dinggang Shen]
  4. Dynamic Development of Regional Cortical Thickness and Surface Area in Early Childhood“, Cerebral Cortex, 2014. [Amanda E. Lyall, Feng Shi, Xiujuan Geng, Sandra Woolson, Gang Li, Li Wang, Robert M. Hamer, Dinggang Shen and John H. Gilmore]
  5. Measuring the Dynamic Longitudinal Cortex Development in Infants by Reconstruction of Temporally Consistent Cortical Surfaces“, NeuroImage 90:266-279, 2014. [Gang Li, Jingxin Nie, Li Wang, Feng Shi, John H. Gilmore, Weili Lin, Dinggang Shen]
  6. Longitudinal development of cortical-thickness, folding, and fiber-density networks in the first two years of life“, Human Brain Mapping 35(8):3726-3737, 2014. [Jingxin Nie, Gang Li, Li Wang, Feng Shi, Weili Lin, John H. Gilmore, Dinggang Shen]
  7. Family Poverty Affects the Rate of Human Infant Brain Growth“, PLOS ONE 8(12): e80954, 2013. [Jamie L. Hanson, Nicole Hair, Dinggang Shen, Feng Shi, John H. Gilmore, Barbara L. Wolfe, Seth D. Pollak]
  8. Development of cortical anatomical properties from early childhood to early adulthood“, Neuroimage 76:216–224, 2013. [Jingxin Nie, Gang Li, Dinggang Shen]
  9. More insights into early brain development through statistical analyses of eigen-structural elements of diffusion tensor imaging using multivariate adaptive regression splines“, Brain Structure and Function 219(2):551-569, 2014. [Yasheng Chen, Hongtu Zhu, Hongyu An, Diane Armao, Dinggang Shen, John H. Gilmore, Weili Lin]
  10. Mapping Region-specific Longitudinal Cortical Surface Expansion from Birth to 2 Years Old“, Cerebral Cortex 23(11):2724-2733, 2013. [Gang Li, Jingxin Nie, Li Wang, Feng Shi, Weili Lin, John H. Gilmore, Dinggang Shen]
  11. Longitudinal Development of Cortical and Subcortical Gray Matter from Birth to 2 Years“, Cerebral Cortex, 22(11):2478-2485, 2012. [John H. Gilmore, Feng Shi, Sandra Woolson, Rebecca C. Knickmeyer , Sarah J. Short , Weili Lin, Hongtu Zhu, Robert M. Hamer, Martin Styner, Dinggang Shen]
  12. A Computational Growth Model for Measuring Dynamic Cortical Development in the First Year of Life”, Cerebral Cortex, 22(10):2272-2284, 2012. [Jingxin Nie, Gang Li, Li Wang, John H. Gilmore, Weili Lin, Dinggang Shen]
  13. Brain Anatomical Networks in Early Human Brain Development”, Neuroimage, 54(3): 1862-1871, Feb. 2011. [Yong Fan, Feng Shi, Jeffrey Keith Smith, Weili Lin, John H. Gilmore, and Dinggang Shen]
  14. Wei Gao, Weili Lin, Yasheng Chen, Guido Gerig, J Keith Smith, Vallery Jewells, John H Gilmore. Temporal and spatial development of axonal maturation and myelination of white matter in the developing brain. AJNR Am J Neuroradiol Vol 30, 290-296 2009.
  15. Multivariate Longitudinal Shape Analysis of Human Lateral Ventricles during the First Twenty-Four Months of Life”. PLoS One. DOI: 10.1371/journal.pone.010830, [Lucile Bompard, Shun Xu, Martin Styner, Beatriz Paniagua, Mihye Ahn, Ying Yuan, Valerie Jewells, Wei Gao, Dinggang Shen, Hongtu Zhu, Weili Lin]