


PeerReviewed Journals [45] J. Min, C. Vonesch, H.Kirshner, L. Carlini, N. Olivier, S. Holden, S. Manley, J.C. Ye, M. Unser, " FALCON: fast and unbiased reconstruction of highdensity superresolution microscopy data," Scientific Reports , Apr. 2014. [44] X. Zong, J.Y. Lee, A. Poplawsky, S.G. Kim, J.C. Ye, " Compressed sensing fMRI using gradientrecalled echo and EPI sequences," NeuroImage , (Accepted), 2014 [43] K. Kim, K.S. Kim, H. Park, J.C. Ye, and Y.K. Park, " Realtime visualization of 3D dynamic microscopic objects using optical diffraction tomography," Optics Express , Vol. 21, Issue 26, pp. 3226932278, 2013 [42] O. Lee, and J. C. Ye " Joint sparsitydriven noniterative simultaneous reconstruction of absorption and scattering in diffuse optical tomography," Optics Express , vol. 21, issue 22, pp. 2658926604, Nov 2013 [41] J.M. Kim, and J.C. Ye " Corrections to "Compressive MUSIC: Revisiting the Link Between Compressive Sensing and Array Signal Processing", IEEE transactions on information theory, ( Sep. 2013) [40] J.Y. Choi, D.G. Kang, S.H. Kang, Y.H. Sung, and J.C. Ye " A unified statistical framework for material decomposition using multienergy photon counting xray detectors", Medical Physics, (Accepted, July 2013) [39] S.H.Tak, and J.C. Ye " Statistical analysis of fNIRS data: A comprehensive review", NeuroImage, (Accepted, June 2013) [38] J. Min, J.D. Jang, D.M. Keum, S.W. Ryu, C.H. Choi, K.H. Jeong, and J.C. Ye " Fluorescent microscopy beyond diffraction limits using speckle illumination and joint support recovery", Scientific Reports, (Accepted, June 2013) [37] K. S. Kim, Y. D. Son, Z. H. Cho, J. B. Ra and J. C. Ye, " UltraFast Hybrid CPUGPU Multiple Scatter Simulation for 3D PET", IEEE Journal of Biomedical and Health Informatics Vol.18, No.1, Jan 2014 [36] H. S. Park, J. K. Choi, K. R. Park, K. S. Kim, S. H. Lee, J. C. Ye and J. K. Seo, "Metal Artifact Reduction in CT by identifying missing data hidden in metals", Journal of Xray Science and Technology (Accepted, May 2013) [35] K. H. Jin, Y. Kim, S. H. Cho, J. C. Ye, and D. Yee " Highspeed terahertz reflection threedimensional imaging for nondestructive evaluation," Optics Express , vol. 20, issue 23, pp. 2543225440, Oct 2012 [34] M. Yi, H. Kim, K. H. Jin, J. C. Ye, and J. Ahn "Terahertz substance imaging by waveform shaping", Optics Express , vol. 20, issue 18, pp. 207839, Aug 2012 [33] J. M. Kim, O. K. Lee, and J. C. Ye, "Improving Noise Robustness in Subspacebased Joint Sparse Recovery ", IEEE Trans. on Signal Processing, vol. 60, no. 11, pp. 57995809, Nov 2012. [32] J. W. Jung, O. K. Lee, and J. C. Ye, "Source localization approach for functional DOT using MUSIC and FDR control", Optics Express , vol. 20, issue 6, pp. 626785 , Mar 2012 [31]S. Park, K. H. Jin, M. Yi, J. C. Ye, J. Ahn, and K. Jeong, "Enhancement of Terahertz Pulse Emission by Optical Nanoantenna", ACS Nano , vol.6 , no.3 , pp.20262031 , February 2012 [30] L. Hua, S. Tak, and J. C. Ye, "Lipschitz Killing Curvature Based Expected Euler Characteristics for pValue Correction in fNIRS"", Journal of Neuroscience Methods , vol. 204 , pp. 6167, February 2012. [29] J. M. Kim, O. K. Lee, and J. C. Ye, "Compressive MUSIC: Revisiting the Link Between Compressive Sensing and Array Signal Processing", IEEE Trans. on Information Theory , vol. 58, no. 1, pp. 278  301, January 2012 [28] J. Choi, K. S. Kim, M. W. Kim, W. Seong, and J. C. Ye,"Sparsity Driven Metal Part Reconstruction for Artifact Removal in Dental CT",Journal of Xray Science and Technology, vol. 19, pp. 457475, October 2011. [27] K. S. Kim and J. C. Ye, "Fully 3D iterative scattercorrected OSEM for HRRT PET using GPU",Phys. Med. Biol., 56, 49915009. July 2011. [26] O. Lee, J.M. Kim, Y. Bresler, and J. C. Ye, "Compressive diffuse optical tomography: noniterative exact reconstruction using joint sparsity",IEEE Trans. Medical Imaging, vol. 30, no. 5, pp. 11291142, May 2011. [25] K. Lee, S. Tak, and J. C. Ye, "A datadriven sparse GLM for fMRI analysis using sparse dictionary learning with MDL criterion", IEEE Trans. Medical Imaging, vol. 30, no. 5, pp. 10761089, May 2011. [24] L. Feng, R. Otazo, H. Jung, J. H. Jensen, J. C. Ye, D. K. Sodickson, D. Kim "Accelerated Cardiac T2 Mapping using Breathhold MultiEcho Fast SpinEcho Pulse Sequence with kt FOCUSS", Magn Reson Med published online: 28 FEB 2011 [23] S. H. Tak, S. J. Yoon, J. Jang, K. S. Yoo, Y. Jeong, and J. C. Ye "Quantitative analysis of hemodynamic and metabolic changes in subcortical vascular dementia using simultaneous nearinfrared spectroscopy and fMRI measurements", NeuroImage, vol 55, pp. 176184, 2011 [22] H. Jung, and J. C. Ye, "Motion estimated and compensated compressed sensing dynamic magnetic resonance imaging: what we can learn from video compression techniques",International Journal of Imaging Systems and Technology . vol 20, pp. 8198, 18 May 2010. (invited paper) [21] S. H. Tak, J. Jang, K. J. Lee, and J. C. Ye, "Quantification of CMRO2 without hypercapnia using simultaneous nearinfrared spectroscopy and fMRI measurements", Phys. Med. Biol., vol. 55, pp. 32493269, May 2010. [20] K. Lee, K. H. Jin, J. C. Ye, and J. Ahn, "Coherent optical computing for Tray imaging", Optics Letters, vol. 35, pp. 508510, February 2010. [19] J. Jang, C. Y. Bae, J. K. Park, and J. C. Ye, "Selfreference quantitative phase microscopy for microfluidic devices", Optics Letters, vol. 35, pp. 514516, February 2010. ( Also selected for publication in the Virtual Journal for Biomedical Optics, vol. 5, iss. 5, March 2010 ) [18] H. Jung, J. S. Park, J. H. Yoo, and J. C. Ye, "Radial kt FOCUSS for highresolution cardiac cine magnetic resonance imaging", Magn Reson Med, vol. 63, pp. 6878, January 2010. [17] K. H. Jin, Y. C. Kim, D. S. Yee, O. K. Lee, and J. C. Ye, "Compressed sensing pulseecho mode THz reflectance tomography",Optics Letters, vol. 34, pp. 38633865, December 2009. [16] K. E. Jang, S. H. Tak, J. W. Jung, J. Jang, Y. Jeong, and J. C. Ye, "WaveletMDL detrending for near infrared spectroscopy (NIRS)", Journal of Biomedical Optics, vol. 14, no. 3, pp. 113, May/June 2009. [15] H. Jung, K. H. Sung, K. S. Nayak, E. Y. Kim, and J. C. Ye, "kt FOCUSS: a general compressed sensing framework for high resolution dynamic MRI",Magn Reson Med, vol. 61, pp. 103116, January 2009. [14] J. C. Ye, S. H. Tak, K. E. Jang, J. W. Jung, J. Jang, "NIRSSPM: Statistical parametric mapping for nearinfrared spectroscopy", NeuroImage, vol. 44, pp. 428447, January 2009. [13] J. C. Ye, "Compressed sensing shape estimation for starshape object in Fourier imaging",IEEE Signal Processing Letters, vol. 14, pp. 750753, October 2007. [12] H. Jung, J. C. Ye, and E. Y. Kim, "Improved kt BLAST and kt SENSE using FOCUSS", Physics in Medicine and Biology, vol. 52, pp. 32013226, June 2007. [11] K. E. Jang and J. C. Ye, "Single channel blind image deconvolution from radially symmetric blur kernels",Opt. Express, vol. 15, pp. 37913803, April 2007. [10] J. C. Ye, S. H. Tak, Y. J. Han, and H. W. Park, "Projection Reconstruction MR Imaging using FOCUSS",Magn Reson Med, vol. 57, pp. 764775, April 2007. [9] J. C. Ye, P. Moulin, and Y. Bresler, "Asymptotic global confidence region for 3D parametric shape estimation in inverse problems", IEEE Trans. on Image Processing, vol. 15, pp. 29042919, November 2006. [8] J. C. Ye, Y. Bresler, and P. Moulin, "CramerRao bounds for parametric shape estimation in inverse problems", IEEE Trans. on Image Processing , vol. 12, pp.7184, January 2003. [7] J. C. Ye, Y. Bresler, and P. Moulin, "A selfreferencing levelset method for image reconstruction from sparse Fourier samples", International Journal of Computer Vision, vol. 50, pp. 253270, December 2002. [6] J. C. Ye, C. A. Bouman, R. P. Millane, and K. J. Webb, "Nonlinear multigrid algorithms for Bayesian optical diffusion tomography", IEEE Trans. on Image Processing, vol. 10, pp. 909922, June 2001. [5] J. C. Ye, Y. Bresler, and P. Moulin, "CramerRao bounds for parametric boundaries of targets in inverse scattering problems",IEEE Trans. on Antennas and Propagat., vol. 49, May 2001. [4] J. C. Ye, Y. Bresler, and P. Moulin, "Asymptotic global confidence regions in parametric shape estimation problems", IEEE Trans. on Information Theory, vol. 46, pp. 18811895, August 2000. [3] J. C. Ye, K. J. Webb, C. A. Bouman, and R. P. Millane, "Optical diffusion tomography using iterative coordinate descent optimization in a Bayesian framework",J. Opt. Soc. Am. A., vol. 16, pp. 24002412, October 1999. [2] J. C. Ye, K. J. Webb, R. P. Millane, and T. J. Downar, "Modified distorted Born iterative method with an approximate Frechet derivative for optical diffusion tomography", J. Opt. Soc. Am. A., vol. 16, pp.18141826 , July 1999. [1] J. C. Ye, R. P.Millane, K. J. Webb, and T. J. Downar, "Importance of the grad(D) term in frequencyresolved optical diffusion imaging",Optics Letters, vol. 23, pp. 14231425, September 1998. 