| “Roadmap on Wavefront Shaping and deep imaging in complex media” | S. Gigan, O. Katz, H. Barbosa de Aguiar, E. Andresen, A. Aubry, J. Bertolotti, E. Bossy, D. Bouchet, J. Brake, S. Brasselet, Y. Bromberg, H. Cao, T. Chaigne, Z. Cheng, W.-S. Choi, T. Cizmar, M. Cui, V. Curtis, H. Defienne, M. Hofer, R. Horisaki, R. Horstmeyer, N. Ji, A. LaViolette, J. Mertz, C. Moser, A. P. Mosk, N. Pégard, R. Piestun, S. Popoff, D. Phillips, D. Psaltis, B. Rahmani, H. Rigneault, S. Rotter, L. Tian, I. M. Vellekoop, L. Waller, L. V. Wang, T. Weber, S. Xiao, C. Xu, A. Yamilov, C. Yang, and H. Yılmaz | J. Phys. Photonics (2022). http://dx.doi.org/10.1088/2515-7647/ac76f9 |
| “Three-Photon Adaptive Optics for Mouse Brain Imaging” | D. Sinefeld, F. Xia, M. Wang, T. Wang, C. Wu, X. Yang, H. P. Paudel, D. G. Ouzounov, T. G. Bifano, and C. Xu | Front. Neurosci. 16, 880859 (2022). http://dx.doi.org/10.3389/fnins.2022.880859 |
| “Closed-loop wavefront sensing and correction in the mouse brain with computed optical coherence microscopy” | S. Liu, F. Xia, X. Yang, M. Wu, L. A. Bizimana, C. Xu, and S. G. Adie | Biomed. Opt. Express 12, 4934 (2021). http://dx.doi.org/10.1364/BOE.427979 |
| “Multicolor Three-Photon Fluorescence Imaging with Single-Wavelength Excitation Deep in Mouse Brain” | Hontani, Y.; Xia, F.; Xu, C. | Sci. Adv. 2021, 7 (12), eabf3531. https://doi.org/10.1126/sciadv.abf3531 |
| “Of Flies, Mice and Neural Control of Food Intake: Lessons to Learn from Both Models” | Cui, X.; Gruzdeva, A.; Kim, H.; Yapici, N. | Current Opinion in Neurobiology 2022, 73, 102531. https://doi.org/10.1016/j.conb.2022.102531 |
| “Multiphoton Imaging of Neural Structure and Activity in Drosophila through the Intact Cuticle” | Aragon, M. J.; Mok, A. T.; Shea, J.; Wang, M.; Kim, H.; Barkdull, N.; Xu, C.; Yapici, N. | eLife 2022, 11, e69094. https://doi.org/10.7554/eLife.69094 |
| “Imaging deeper than the transport mean free path with multiphoton microscopy” | Najva Akbari, Mihailo R Rebec, Aaron K Laviolette, Fei Xia, Yusaku Hontani, AndChris Xu | Biomed. Opt. Express Vol. 13, Issue 1, pp. 452-463 (2022). https://doi.org/10.1364/BOE.444696 |
| “Spatially resolved measurements of ballistic and total transmission in microscale tissue samplesfrom 450 nm to 1624 nm” | Aaron T. Mok, Jamien Shea, Chunyan Wu, Fei Xia, Rose Tatarsky, Nilay Yapici, and Chris Xu | Biomed. Opt. Express Vol. 13, Issue 1, pp. 438-451 (2022). https://doi.org/10.1364/BOE.441844 |
| “Deep-tissue Three-photon Fluorescence Microscopy in Intact Mouse and Zebrafish Brain” | Hontani, Y., Akbari, N., Kolkman, K. E., Wu, C., Xia, F., Choe, K., Wang, G. Z., Sokolova, M., Fetcho, J. R., Xu, C. | J. Vis. Exp. (179), e63213, doi:10.3791/63213 (2022). https://www.jove.com/t/63213/deep-tissue-three-photon-fluorescence-microscopy-intact-mouse |
| “Intravital imaging the subventricular zone with three photon microscopy” | Bin Sun, Mengran Wang, Anna Hoerder-Suabedissen, Chris Xu, Adam M Packer, Francis Szele. | Cerebral Cortex, bhab400, 2022. https://doi.org/10.1093/cercor/bhab400 |
| “Imaging deeper than the transport mean free path with multiphoton microscopy” | Najva Akbari, Mihailo R Rebec, Aaron K Laviolette, Fei Xia, Yusaku Hontani, AndChris Xu | Biomed. Opt. Express Vol. 13, Issue 1, pp. 452-463 (2022). https://doi.org/10.1364/BOE.444696 |
| “Spatially resolved measurements of ballistic and total transmission in microscale tissue samplesfrom 450 nm to 1624 nm” | Aaron T. Mok, Jamien Shea, Chunyan Wu, Fei Xia, Rose Tatarsky, Nilay Yapici, and Chris Xu | Biomed. Opt. Express Vol. 13, Issue 1, pp. 438-451 (2022). https://doi.org/10.1364/BOE.441844 |
| “Deep-tissue Three-photon Fluorescence Microscopy in Intact Mouse and Zebrafish Brain” | Hontani, Y., Akbari, N., Kolkman, K. E., Wu, C., Xia, F., Choe, K., Wang, G. Z., Sokolova, M., Fetcho, J. R., Xu, C. | J. Vis. Exp. (179), e63213, doi:10.3791/63213 (2022). https://www.jove.com/t/63213/deep-tissue-three-photon-fluorescence-microscopy-intact-mouse |
| “Intravital imaging the subventricular zone with three photon microscopy” | Bin Sun, Mengran Wang, Anna Hoerder-Suabedissen, Chris Xu, Adam M Packer, Francis Szele. | Cerebral Cortex, bhab400, 2022. https://doi.org/10.1093/cercor/bhab400 |
|
Shot noise limits on binary detection in multiphoton imaging |
A. K. LaViolette and C. Xu |
Biomed. Opt. Express 12, 7033 (2021). http://dx.doi.org/10.1364/BOE.442442 |
|
Short-Wave Infrared Confocal Fluorescence Imaging of Deep Mouse Brain with a Superconducting Nanowire Single-Photon Detector, |
F. Xia, M. Gevers, A. Fognini, A. T. Mok, B. Li, N. Akbari, I. E. Zadeh, J. Qin-Dregely, and C. Xu |
ACS Photonics 8, 2800–2810 (2021). http://dx.doi.org/10.1021/acsphotonics.1c01018 |
| HyperRecon: Regularization-Agnostic CS-MRI Reconstruction with Hypernetworks | A. Q. Wang, A. V. Dalca, and M. R. Sabuncu |
In N. Haq, P. Johnson, A. Maier, T. Würfl, & J. Yoo (Eds.), Machine Learning for Medical Image Reconstruction (Vol. 12964, pp. 3–13). Cham: Springer International Publishing (2021). http://dx.doi.org/10.1007/978-3-030-88552-6_1
|
| Text2Brain: Synthesis of Brain Activation Maps from Free-Form Text Query | G. H. Ngo, M. Nguyen, N. F. Chen, and M. R. Sabuncu | In M. de Bruijne, P. C. Cattin, S. Cotin, N. Padoy, S. Speidel, Y. Zheng, & C. Essert (Eds.), Medical Image Computing and Computer Assisted Intervention – MICCAI 2021: 24th International Conference, Strasbourg, France, September 27 – October 1, 2021, Proceedings, Part VII (Vol. 12907, pp. 605–614). Cham: Springer International Publishing (2021). http://dx.doi.org/10.1007/978-3-030-87234-2 |
|
“Heritability and interindividual variability of regional structure-function coupling“
|
Z. Gu, K. W. Jamison, M. R. Sabuncu, A. Kuceyeski | Nature Communications 12, 2021. DOI: 10.1038/s41467-021-25184-4 |
| “Closed-loop wavefront sensing and correction in the mouse brain with computed optical coherence microscopy” | Siyang Lu, Fei Xia, Xusan Yang, Meiqi Wu, Laurie A. Bizimana, Chris Xu, and Steven G. Adie |
Biomedical Optics Express, Vol. 12, Number 8. August , 2021. DOI: |
| “Multicolor three-photon fluorescence imaging with single-wavelength excitation deep in mouse brain” | Yusaku Hontani, Fei Xia, and Chris Xu |
Science Advances, Vol. 7, Number 12. March 17, 2021. DOI: |
| “Three-photon neuronal imaging in deep mouse brain” | Tianyu Wang and Chris Xu |
Optica, Vol. 7, Issue 8, pp. 947-960 DOI: |
| “Deep three-photon imaging of the brain in intact adult zebrafish” | Dawnis M. Chow, David Sinefeld, Kristine E. Kolkman, Dimitre G. Ouzounov, Najva Akbari, Rose Tatarsky, Andrew Bass, Chris Xu, and Joseph R. Fetcho | Nature Methods, April 27, 2020, 1548-7091, 1548-7105 DOI: 10.1038/s41592-020-0819-7 |
| “Surgical preparations, labeling strategies, and optical techniques for cell-resolved, in vivo imaging in the mouse spinal cord” | Yu-Ting Cheng, Kawasi M. Lett, and Chris B. Schaffer | Experimental Neurology, August 2019, Volume 318, 192-204 DOI: 10.1016/j.expneurol.2019.05.010 |
| “Simultaneous Two- and Three-photon Imaging of Multilayer Neural Activities with Remote Focusing” | Aaron T. Mok, Tianyu Wang, Fei Xia, Chunyan Wu, and Chris Xu. | Conference on Lasers and Electro-Optics, OSA Technical Digest (Optical Society of America, 2019), paper AM1I.5. DOI: 10.1364/CLEO_AT.2019.AM1I.5 |
| “Quantitative analysis of 1300-nm three-photon calcium imaging in the mouse brain” | Tianyu Wang, Chunyan Wu, Dimitre G Ouzounov, Wenchao Gu, Fei Xia, Minsu Kim, Xusan Yang, Melissa R Warden, and Chris Xu | eLife 2020;9:e53205. DOI: 10.7554/eLife.53205 |
| “An adaptive excitation source for high-speed multiphoton microscopy” | Bo Li, Chunyan Wu, Mengran Wang, Kriti Charan, and Chris Xu | Nature Methods 17, 163–166 (2020). DOI: 10.1038/s41592-019-0663-9 |
| “Deep convolutional neural networks for segmenting 3D in vivo multi photon images of vasculature in Alzheimer disease mouse models” | Mohammad Haft-Javaherian, Linjing Fang, Victorian Muse, Chris B. Schaffer, Nozomi Nishimura, Mert R. Sabuncu | PLOS ONE, 14(3), e0213539, 2019. |
| “Ensemble learning with 3D convolutional neural networks for functional connectome-based prediction” | Meenakshi Khosla, Keith Jamison, Amy Kuceyeski, Mert R. Sabuncu | NeuroImage, 199, 651-662, 2019. |
| “GCaMP6 ΔF/F dependence on the excitation wavelength in 3-photon and 2-photon microscopy of mouse brain activity” | Dimitre G. Ouzounov, Tianyu Wang, Chunyan Wu, Chris Xu | Biomedical Opt. Express, 10(7), 3343-3352, 2019. |
| “A Bayesian Disease Progression Model for Clinical Trajectories” | Yingying Zhu, Mert R. Sabuncu | Graphs in Biomedical Image Analysis and Integrating Medical Imaging and Non-Imaging Modalities (pp. 57-65). Springer International Publishing, 2019. |
|
“Impact of the emission wavelengths on in vivo multiphoton imaging of mouse brains” |
Mengran Wang, Minsu Kim, Fei Xia, and Chris Xu | Biomed. Opt. Express 10, 1905-1918, 2019. |
| “Comparison of emission wavelengths for in vivo deep imaging of mouse brain” | Mengran Wang, Minsu Kim, Fei Xia, and Chris Xu | Proc. SPIE 10882, Multiphoton Microscopy in the Biomedical Sciences XIX, 108822I, 2019. |
| “Three-photon imaging of mouse brain structure and function through the intact skull” | Tianyu Wang, Dimitre G. Ouzounov, Chunyan Wu, Nicholas G. Horton, Bin Zhang, Cheng-Hsun Wu, Yanping Zhang, Mark J. Schnitzer, and Chris Xu | Nature Methods, 1548-7105, 2018. |
| “Comparing the effective attenuation lengths for long wavelength in vivo imaging of the mouse brain” | Mengran Wang, Chunyan Wu, David Sinefeld, Bo Li, Fei Xia, and Chris Xu | Biomed. Opt. Express, 9, 3534-3543, 2018. |
| “An adaptive excitation source for multiphoton imaging” | Bo Li, Mengran Wang, Chunyan Wu, Kriti Charan, and Chris Xu | CLEO Postdeadline Papers Session III, OSA Technical Digest, paper JTh5C.5, 2018. |
| “Comparison of excitation wavelengths for in vivo deep imaging of mouse brain” | Mengran Wang, Chunyan Wu, Bo Li, Fei Via, David Sinefeld, and Chris Xu | Proc. SPIE 10498, Multiphoton Microscopy in the Biomedical Sciences XVIII, 104982A, 2018. |
| “In vivo three-photon imaging of deep mouse cerebellum” | Mengran Wang, Tianyu Wang, Chunyan Wu, Bo Li, Dimitre G. Ouzounov, David Sinefeld, Akash Guru, Hyung-Song Nam, Mario R. Capecchi, Melissa R. Warden, and Chris Xu | Proc. SPIE 10498, Multiphoton Microscopy in the Biomedical Sciences XVIII, 1049816, 2018. |
| “Fiber-based, tunable repetition rate source for deep tissue two-photon fluorescence microscopy” | Kriti Charan, Bo Li, Mengran Wang, Charles P. Lin, and Chris Xu | Biomedical Optics Express, 9, 2304-2311, 2018. |
| “Generalized Cross Entropy Loss for Training Deep Neural Networks with Noisy Labels” | Zhilu Zhang and Mert R. Sabuncu | 32nd Conference on Neural Information Processing Systems (NeurIPS 2018), Montréal, Canada, 2018. |
| “Investigation of the long wavelength limit of soliton self-frequency shift in a silica fiber” | Bo Li, Mengran Wang, Kriti Charan, Ming-jun Li, and Chris Xu | Opt. Express 26, 19637-19647, 2018. |
| “Multiphoton imaging of neural structure and activity in Drosphilia through the intact cuticle” | Max Jameson Aragon, Aaron T Mok, Jamien Shea, Mengran Wang, Haein Kim, Nathan Barkdull, Chris Xu, Nilay Yapici | eLife 2022, Vol. 11:e69094. https://doi.org/10.7554/eLife.69094 |
| “Intravital three-photon microscopy allows visualization over the entire depth of mouse lymph nodes” | Kibaek Choe, Yusaku Hontani, Tianuy Wang, Eric Hebert, Dimitre G. Ouzounov, Kristine, Lai,Ankur Singh, Wendy Beguelin, Ari M. Melnick, and Chris Xu | Nat Immunol (2022). https://doi.org/10.1038/s41590-021-01101-1 |
| HyperRecon: Regularization-Agnostic CS-MRI Reconstruction with Hypernetworks | A. Q. Wang, A. V. Dalca, and M. R. Sabuncu |
In N. Haq, P. Johnson, A. Maier, T. Würfl, & J. Yoo (Eds.), Machine Learning for Medical Image Reconstruction (Vol. 12964, pp. 3–13). Cham: Springer International Publishing (2021). http://dx.doi.org/10.1007/978-3-030-88552-6_1
|
| Text2Brain: Synthesis of Brain Activation Maps from Free-Form Text Query | G. H. Ngo, M. Nguyen, N. F. Chen, and M. R. Sabuncu | In M. de Bruijne, P. C. Cattin, S. Cotin, N. Padoy, S. Speidel, Y. Zheng, & C. Essert (Eds.), Medical Image Computing and Computer Assisted Intervention – MICCAI 2021: 24th International Conference, Strasbourg, France, September 27 – October 1, 2021, Proceedings, Part VII (Vol. 12907, pp. 605–614). Cham: Springer International Publishing (2021). http://dx.doi.org/10.1007/978-3-030-87234-2 |
|
“Heritability and interindividual variability of regional structure-function coupling“
|
Z. Gu, K. W. Jamison, M. R. Sabuncu, A. Kuceyeski | Nature Communications 12, 2021. DOI: 10.1038/s41467-021-25184-4 |
| “Closed-loop wavefront sensing and correction in the mouse brain with computed optical coherence microscopy” | Siyang Lu, Fei Xia, Xusan Yang, Meiqi Wu, Laurie A. Bizimana, Chris Xu, and Steven G. Adie |
Biomedical Optics Express, Vol. 12, Number 8. August , 2021. DOI: |
| “Multicolor three-photon fluorescence imaging with single-wavelength excitation deep in mouse brain” | Yusaku Hontani, Fei Xia, and Chris Xu |
Science Advances, Vol. 7, Number 12. March 17, 2021. DOI: |
| “Three-photon neuronal imaging in deep mouse brain” | Tianyu Wang and Chris Xu |
Optica, Vol. 7, Issue 8, pp. 947-960 DOI: |
| “Deep three-photon imaging of the brain in intact adult zebrafish” | Dawnis M. Chow, David Sinefeld, Kristine E. Kolkman, Dimitre G. Ouzounov, Najva Akbari, Rose Tatarsky, Andrew Bass, Chris Xu, and Joseph R. Fetcho | Nature Methods, April 27, 2020, 1548-7091, 1548-7105 DOI: 10.1038/s41592-020-0819-7 |
| “Surgical preparations, labeling strategies, and optical techniques for cell-resolved, in vivo imaging in the mouse spinal cord” | Yu-Ting Cheng, Kawasi M. Lett, and Chris B. Schaffer | Experimental Neurology, August 2019, Volume 318, 192-204 DOI: 10.1016/j.expneurol.2019.05.010 |
| “Simultaneous Two- and Three-photon Imaging of Multilayer Neural Activities with Remote Focusing” | Aaron T. Mok, Tianyu Wang, Fei Xia, Chunyan Wu, and Chris Xu. | Conference on Lasers and Electro-Optics, OSA Technical Digest (Optical Society of America, 2019), paper AM1I.5. DOI: 10.1364/CLEO_AT.2019.AM1I.5 |
| “Quantitative analysis of 1300-nm three-photon calcium imaging in the mouse brain” | Tianyu Wang, Chunyan Wu, Dimitre G Ouzounov, Wenchao Gu, Fei Xia, Minsu Kim, Xusan Yang, Melissa R Warden, and Chris Xu | eLife 2020;9:e53205. DOI: 10.7554/eLife.53205 |
| “An adaptive excitation source for high-speed multiphoton microscopy” | Bo Li, Chunyan Wu, Mengran Wang, Kriti Charan, and Chris Xu | Nature Methods 17, 163–166 (2020). DOI: 10.1038/s41592-019-0663-9 |
| “Deep convolutional neural networks for segmenting 3D in vivo multi photon images of vasculature in Alzheimer disease mouse models” | Mohammad Haft-Javaherian, Linjing Fang, Victorian Muse, Chris B. Schaffer, Nozomi Nishimura, Mert R. Sabuncu | PLOS ONE, 14(3), e0213539, 2019. |
| “Ensemble learning with 3D convolutional neural networks for functional connectome-based prediction” | Meenakshi Khosla, Keith Jamison, Amy Kuceyeski, Mert R. Sabuncu | NeuroImage, 199, 651-662, 2019. |
| “GCaMP6 ΔF/F dependence on the excitation wavelength in 3-photon and 2-photon microscopy of mouse brain activity” | Dimitre G. Ouzounov, Tianyu Wang, Chunyan Wu, Chris Xu | Biomedical Opt. Express, 10(7), 3343-3352, 2019. |
| “A Bayesian Disease Progression Model for Clinical Trajectories” | Yingying Zhu, Mert R. Sabuncu | Graphs in Biomedical Image Analysis and Integrating Medical Imaging and Non-Imaging Modalities (pp. 57-65). Springer International Publishing, 2019. |
|
“Impact of the emission wavelengths on in vivo multiphoton imaging of mouse brains” |
Mengran Wang, Minsu Kim, Fei Xia, and Chris Xu | Biomed. Opt. Express 10, 1905-1918, 2019. |
| “Comparison of emission wavelengths for in vivo deep imaging of mouse brain” | Mengran Wang, Minsu Kim, Fei Xia, and Chris Xu | Proc. SPIE 10882, Multiphoton Microscopy in the Biomedical Sciences XIX, 108822I, 2019. |
| “Three-photon imaging of mouse brain structure and function through the intact skull” | Tianyu Wang, Dimitre G. Ouzounov, Chunyan Wu, Nicholas G. Horton, Bin Zhang, Cheng-Hsun Wu, Yanping Zhang, Mark J. Schnitzer, and Chris Xu | Nature Methods, 1548-7105, 2018. |
| “Comparing the effective attenuation lengths for long wavelength in vivo imaging of the mouse brain” | Mengran Wang, Chunyan Wu, David Sinefeld, Bo Li, Fei Xia, and Chris Xu | Biomed. Opt. Express, 9, 3534-3543, 2018. |
| “An adaptive excitation source for multiphoton imaging” | Bo Li, Mengran Wang, Chunyan Wu, Kriti Charan, and Chris Xu | CLEO Postdeadline Papers Session III, OSA Technical Digest, paper JTh5C.5, 2018. |
| “Comparison of excitation wavelengths for in vivo deep imaging of mouse brain” | Mengran Wang, Chunyan Wu, Bo Li, Fei Via, David Sinefeld, and Chris Xu | Proc. SPIE 10498, Multiphoton Microscopy in the Biomedical Sciences XVIII, 104982A, 2018. |
| “In vivo three-photon imaging of deep mouse cerebellum” | Mengran Wang, Tianyu Wang, Chunyan Wu, Bo Li, Dimitre G. Ouzounov, David Sinefeld, Akash Guru, Hyung-Song Nam, Mario R. Capecchi, Melissa R. Warden, and Chris Xu | Proc. SPIE 10498, Multiphoton Microscopy in the Biomedical Sciences XVIII, 1049816, 2018. |
| “Fiber-based, tunable repetition rate source for deep tissue two-photon fluorescence microscopy” | Kriti Charan, Bo Li, Mengran Wang, Charles P. Lin, and Chris Xu | Biomedical Optics Express, 9, 2304-2311, 2018. |
| “Generalized Cross Entropy Loss for Training Deep Neural Networks with Noisy Labels” | Zhilu Zhang and Mert R. Sabuncu | 32nd Conference on Neural Information Processing Systems (NeurIPS 2018), Montréal, Canada, 2018. |
| “Investigation of the long wavelength limit of soliton self-frequency shift in a silica fiber” | Bo Li, Mengran Wang, Kriti Charan, Ming-jun Li, and Chris Xu | Opt. Express 26, 19637-19647, 2018. |
| HyperRecon: Regularization-Agnostic CS-MRI Reconstruction with Hypernetworks | A. Q. Wang, A. V. Dalca, and M. R. Sabuncu |
In N. Haq, P. Johnson, A. Maier, T. Würfl, & J. Yoo (Eds.), Machine Learning for Medical Image Reconstruction (Vol. 12964, pp. 3–13). Cham: Springer International Publishing (2021). http://dx.doi.org/10.1007/978-3-030-88552-6_1
|
| Text2Brain: Synthesis of Brain Activation Maps from Free-Form Text Query | G. H. Ngo, M. Nguyen, N. F. Chen, and M. R. Sabuncu | In M. de Bruijne, P. C. Cattin, S. Cotin, N. Padoy, S. Speidel, Y. Zheng, & C. Essert (Eds.), Medical Image Computing and Computer Assisted Intervention – MICCAI 2021: 24th International Conference, Strasbourg, France, September 27 – October 1, 2021, Proceedings, Part VII (Vol. 12907, pp. 605–614). Cham: Springer International Publishing (2021). http://dx.doi.org/10.1007/978-3-030-87234-2 |
|
“Heritability and interindividual variability of regional structure-function coupling“
|
Z. Gu, K. W. Jamison, M. R. Sabuncu, A. Kuceyeski | Nature Communications 12, 2021. DOI: 10.1038/s41467-021-25184-4 |
| “Closed-loop wavefront sensing and correction in the mouse brain with computed optical coherence microscopy” | Siyang Lu, Fei Xia, Xusan Yang, Meiqi Wu, Laurie A. Bizimana, Chris Xu, and Steven G. Adie |
Biomedical Optics Express, Vol. 12, Number 8. August , 2021. DOI: |
| “Multicolor three-photon fluorescence imaging with single-wavelength excitation deep in mouse brain” | Yusaku Hontani, Fei Xia, and Chris Xu |
Science Advances, Vol. 7, Number 12. March 17, 2021. DOI: |
| “Three-photon neuronal imaging in deep mouse brain” | Tianyu Wang and Chris Xu |
Optica, Vol. 7, Issue 8, pp. 947-960 DOI: |
| “Deep three-photon imaging of the brain in intact adult zebrafish” | Dawnis M. Chow, David Sinefeld, Kristine E. Kolkman, Dimitre G. Ouzounov, Najva Akbari, Rose Tatarsky, Andrew Bass, Chris Xu, and Joseph R. Fetcho | Nature Methods, April 27, 2020, 1548-7091, 1548-7105 DOI: 10.1038/s41592-020-0819-7 |
| “Surgical preparations, labeling strategies, and optical techniques for cell-resolved, in vivo imaging in the mouse spinal cord” | Yu-Ting Cheng, Kawasi M. Lett, and Chris B. Schaffer | Experimental Neurology, August 2019, Volume 318, 192-204 DOI: 10.1016/j.expneurol.2019.05.010 |
| “Simultaneous Two- and Three-photon Imaging of Multilayer Neural Activities with Remote Focusing” | Aaron T. Mok, Tianyu Wang, Fei Xia, Chunyan Wu, and Chris Xu. | Conference on Lasers and Electro-Optics, OSA Technical Digest (Optical Society of America, 2019), paper AM1I.5. DOI: 10.1364/CLEO_AT.2019.AM1I.5 |
| “Quantitative analysis of 1300-nm three-photon calcium imaging in the mouse brain” | Tianyu Wang, Chunyan Wu, Dimitre G Ouzounov, Wenchao Gu, Fei Xia, Minsu Kim, Xusan Yang, Melissa R Warden, and Chris Xu | eLife 2020;9:e53205. DOI: 10.7554/eLife.53205 |
| “An adaptive excitation source for high-speed multiphoton microscopy” | Bo Li, Chunyan Wu, Mengran Wang, Kriti Charan, and Chris Xu | Nature Methods 17, 163–166 (2020). DOI: 10.1038/s41592-019-0663-9 |
| “Deep convolutional neural networks for segmenting 3D in vivo multi photon images of vasculature in Alzheimer disease mouse models” | Mohammad Haft-Javaherian, Linjing Fang, Victorian Muse, Chris B. Schaffer, Nozomi Nishimura, Mert R. Sabuncu | PLOS ONE, 14(3), e0213539, 2019. |
| “Ensemble learning with 3D convolutional neural networks for functional connectome-based prediction” | Meenakshi Khosla, Keith Jamison, Amy Kuceyeski, Mert R. Sabuncu | NeuroImage, 199, 651-662, 2019. |
| “GCaMP6 ΔF/F dependence on the excitation wavelength in 3-photon and 2-photon microscopy of mouse brain activity” | Dimitre G. Ouzounov, Tianyu Wang, Chunyan Wu, Chris Xu | Biomedical Opt. Express, 10(7), 3343-3352, 2019. |
| “A Bayesian Disease Progression Model for Clinical Trajectories” | Yingying Zhu, Mert R. Sabuncu | Graphs in Biomedical Image Analysis and Integrating Medical Imaging and Non-Imaging Modalities (pp. 57-65). Springer International Publishing, 2019. |
|
“Impact of the emission wavelengths on in vivo multiphoton imaging of mouse brains” |
Mengran Wang, Minsu Kim, Fei Xia, and Chris Xu | Biomed. Opt. Express 10, 1905-1918, 2019. |
| “Comparison of emission wavelengths for in vivo deep imaging of mouse brain” | Mengran Wang, Minsu Kim, Fei Xia, and Chris Xu | Proc. SPIE 10882, Multiphoton Microscopy in the Biomedical Sciences XIX, 108822I, 2019. |
| “Three-photon imaging of mouse brain structure and function through the intact skull” | Tianyu Wang, Dimitre G. Ouzounov, Chunyan Wu, Nicholas G. Horton, Bin Zhang, Cheng-Hsun Wu, Yanping Zhang, Mark J. Schnitzer, and Chris Xu | Nature Methods, 1548-7105, 2018. |
| “Comparing the effective attenuation lengths for long wavelength in vivo imaging of the mouse brain” | Mengran Wang, Chunyan Wu, David Sinefeld, Bo Li, Fei Xia, and Chris Xu | Biomed. Opt. Express, 9, 3534-3543, 2018. |
| “An adaptive excitation source for multiphoton imaging” | Bo Li, Mengran Wang, Chunyan Wu, Kriti Charan, and Chris Xu | CLEO Postdeadline Papers Session III, OSA Technical Digest, paper JTh5C.5, 2018. |
| “Comparison of excitation wavelengths for in vivo deep imaging of mouse brain” | Mengran Wang, Chunyan Wu, Bo Li, Fei Via, David Sinefeld, and Chris Xu | Proc. SPIE 10498, Multiphoton Microscopy in the Biomedical Sciences XVIII, 104982A, 2018. |
| “In vivo three-photon imaging of deep mouse cerebellum” | Mengran Wang, Tianyu Wang, Chunyan Wu, Bo Li, Dimitre G. Ouzounov, David Sinefeld, Akash Guru, Hyung-Song Nam, Mario R. Capecchi, Melissa R. Warden, and Chris Xu | Proc. SPIE 10498, Multiphoton Microscopy in the Biomedical Sciences XVIII, 1049816, 2018. |
| “Fiber-based, tunable repetition rate source for deep tissue two-photon fluorescence microscopy” | Kriti Charan, Bo Li, Mengran Wang, Charles P. Lin, and Chris Xu | Biomedical Optics Express, 9, 2304-2311, 2018. |
| “Generalized Cross Entropy Loss for Training Deep Neural Networks with Noisy Labels” | Zhilu Zhang and Mert R. Sabuncu | 32nd Conference on Neural Information Processing Systems (NeurIPS 2018), Montréal, Canada, 2018. |
| “Investigation of the long wavelength limit of soliton self-frequency shift in a silica fiber” | Bo Li, Mengran Wang, Kriti Charan, Ming-jun Li, and Chris Xu | Opt. Express 26, 19637-19647, 2018. |
| HyperRecon: Regularization-Agnostic CS-MRI Reconstruction with Hypernetworks | A. Q. Wang, A. V. Dalca, and M. R. Sabuncu |
In N. Haq, P. Johnson, A. Maier, T. Würfl, & J. Yoo (Eds.), Machine Learning for Medical Image Reconstruction (Vol. 12964, pp. 3–13). Cham: Springer International Publishing (2021). http://dx.doi.org/10.1007/978-3-030-88552-6_1
|
| Text2Brain: Synthesis of Brain Activation Maps from Free-Form Text Query | G. H. Ngo, M. Nguyen, N. F. Chen, and M. R. Sabuncu | In M. de Bruijne, P. C. Cattin, S. Cotin, N. Padoy, S. Speidel, Y. Zheng, & C. Essert (Eds.), Medical Image Computing and Computer Assisted Intervention – MICCAI 2021: 24th International Conference, Strasbourg, France, September 27 – October 1, 2021, Proceedings, Part VII (Vol. 12907, pp. 605–614). Cham: Springer International Publishing (2021). http://dx.doi.org/10.1007/978-3-030-87234-2 |
|
“Heritability and interindividual variability of regional structure-function coupling“
|
Z. Gu, K. W. Jamison, M. R. Sabuncu, A. Kuceyeski | Nature Communications 12, 2021. DOI: 10.1038/s41467-021-25184-4 |
| “Closed-loop wavefront sensing and correction in the mouse brain with computed optical coherence microscopy” | Siyang Lu, Fei Xia, Xusan Yang, Meiqi Wu, Laurie A. Bizimana, Chris Xu, and Steven G. Adie |
Biomedical Optics Express, Vol. 12, Number 8. August , 2021. DOI: |
| “Multicolor three-photon fluorescence imaging with single-wavelength excitation deep in mouse brain” | Yusaku Hontani, Fei Xia, and Chris Xu |
Science Advances, Vol. 7, Number 12. March 17, 2021. DOI: |
| “Three-photon neuronal imaging in deep mouse brain” | Tianyu Wang and Chris Xu |
Optica, Vol. 7, Issue 8, pp. 947-960 DOI: |
| “Deep three-photon imaging of the brain in intact adult zebrafish” | Dawnis M. Chow, David Sinefeld, Kristine E. Kolkman, Dimitre G. Ouzounov, Najva Akbari, Rose Tatarsky, Andrew Bass, Chris Xu, and Joseph R. Fetcho | Nature Methods, April 27, 2020, 1548-7091, 1548-7105 DOI: 10.1038/s41592-020-0819-7 |
| “Surgical preparations, labeling strategies, and optical techniques for cell-resolved, in vivo imaging in the mouse spinal cord” | Yu-Ting Cheng, Kawasi M. Lett, and Chris B. Schaffer | Experimental Neurology, August 2019, Volume 318, 192-204 DOI: 10.1016/j.expneurol.2019.05.010 |
| “Simultaneous Two- and Three-photon Imaging of Multilayer Neural Activities with Remote Focusing” | Aaron T. Mok, Tianyu Wang, Fei Xia, Chunyan Wu, and Chris Xu. | Conference on Lasers and Electro-Optics, OSA Technical Digest (Optical Society of America, 2019), paper AM1I.5. DOI: 10.1364/CLEO_AT.2019.AM1I.5 |
| “Quantitative analysis of 1300-nm three-photon calcium imaging in the mouse brain” | Tianyu Wang, Chunyan Wu, Dimitre G Ouzounov, Wenchao Gu, Fei Xia, Minsu Kim, Xusan Yang, Melissa R Warden, and Chris Xu | eLife 2020;9:e53205. DOI: 10.7554/eLife.53205 |
| “An adaptive excitation source for high-speed multiphoton microscopy” | Bo Li, Chunyan Wu, Mengran Wang, Kriti Charan, and Chris Xu | Nature Methods 17, 163–166 (2020). DOI: 10.1038/s41592-019-0663-9 |
| “Deep convolutional neural networks for segmenting 3D in vivo multi photon images of vasculature in Alzheimer disease mouse models” | Mohammad Haft-Javaherian, Linjing Fang, Victorian Muse, Chris B. Schaffer, Nozomi Nishimura, Mert R. Sabuncu | PLOS ONE, 14(3), e0213539, 2019. |
| “Ensemble learning with 3D convolutional neural networks for functional connectome-based prediction” | Meenakshi Khosla, Keith Jamison, Amy Kuceyeski, Mert R. Sabuncu | NeuroImage, 199, 651-662, 2019. |
| “GCaMP6 ΔF/F dependence on the excitation wavelength in 3-photon and 2-photon microscopy of mouse brain activity” | Dimitre G. Ouzounov, Tianyu Wang, Chunyan Wu, Chris Xu | Biomedical Opt. Express, 10(7), 3343-3352, 2019. |
| “A Bayesian Disease Progression Model for Clinical Trajectories” | Yingying Zhu, Mert R. Sabuncu | Graphs in Biomedical Image Analysis and Integrating Medical Imaging and Non-Imaging Modalities (pp. 57-65). Springer International Publishing, 2019. |
|
“Impact of the emission wavelengths on in vivo multiphoton imaging of mouse brains” |
Mengran Wang, Minsu Kim, Fei Xia, and Chris Xu | Biomed. Opt. Express 10, 1905-1918, 2019. |
| “Comparison of emission wavelengths for in vivo deep imaging of mouse brain” | Mengran Wang, Minsu Kim, Fei Xia, and Chris Xu | Proc. SPIE 10882, Multiphoton Microscopy in the Biomedical Sciences XIX, 108822I, 2019. |
| “Three-photon imaging of mouse brain structure and function through the intact skull” | Tianyu Wang, Dimitre G. Ouzounov, Chunyan Wu, Nicholas G. Horton, Bin Zhang, Cheng-Hsun Wu, Yanping Zhang, Mark J. Schnitzer, and Chris Xu | Nature Methods, 1548-7105, 2018. |
| “Comparing the effective attenuation lengths for long wavelength in vivo imaging of the mouse brain” | Mengran Wang, Chunyan Wu, David Sinefeld, Bo Li, Fei Xia, and Chris Xu | Biomed. Opt. Express, 9, 3534-3543, 2018. |
| “An adaptive excitation source for multiphoton imaging” | Bo Li, Mengran Wang, Chunyan Wu, Kriti Charan, and Chris Xu | CLEO Postdeadline Papers Session III, OSA Technical Digest, paper JTh5C.5, 2018. |
| “Comparison of excitation wavelengths for in vivo deep imaging of mouse brain” | Mengran Wang, Chunyan Wu, Bo Li, Fei Via, David Sinefeld, and Chris Xu | Proc. SPIE 10498, Multiphoton Microscopy in the Biomedical Sciences XVIII, 104982A, 2018. |
| “In vivo three-photon imaging of deep mouse cerebellum” | Mengran Wang, Tianyu Wang, Chunyan Wu, Bo Li, Dimitre G. Ouzounov, David Sinefeld, Akash Guru, Hyung-Song Nam, Mario R. Capecchi, Melissa R. Warden, and Chris Xu | Proc. SPIE 10498, Multiphoton Microscopy in the Biomedical Sciences XVIII, 1049816, 2018. |
| “Fiber-based, tunable repetition rate source for deep tissue two-photon fluorescence microscopy” | Kriti Charan, Bo Li, Mengran Wang, Charles P. Lin, and Chris Xu | Biomedical Optics Express, 9, 2304-2311, 2018. |
| “Generalized Cross Entropy Loss for Training Deep Neural Networks with Noisy Labels” | Zhilu Zhang and Mert R. Sabuncu | 32nd Conference on Neural Information Processing Systems (NeurIPS 2018), Montréal, Canada, 2018. |
| “Investigation of the long wavelength limit of soliton self-frequency shift in a silica fiber” | Bo Li, Mengran Wang, Kriti Charan, Ming-jun Li, and Chris Xu | Opt. Express 26, 19637-19647, 2018. |
| HyperRecon: Regularization-Agnostic CS-MRI Reconstruction with Hypernetworks | A. Q. Wang, A. V. Dalca, and M. R. Sabuncu |
In N. Haq, P. Johnson, A. Maier, T. Würfl, & J. Yoo (Eds.), Machine Learning for Medical Image Reconstruction (Vol. 12964, pp. 3–13). Cham: Springer International Publishing (2021). http://dx.doi.org/10.1007/978-3-030-88552-6_1
|
| Text2Brain: Synthesis of Brain Activation Maps from Free-Form Text Query | G. H. Ngo, M. Nguyen, N. F. Chen, and M. R. Sabuncu | In M. de Bruijne, P. C. Cattin, S. Cotin, N. Padoy, S. Speidel, Y. Zheng, & C. Essert (Eds.), Medical Image Computing and Computer Assisted Intervention – MICCAI 2021: 24th International Conference, Strasbourg, France, September 27 – October 1, 2021, Proceedings, Part VII (Vol. 12907, pp. 605–614). Cham: Springer International Publishing (2021). http://dx.doi.org/10.1007/978-3-030-87234-2 |
|
“Heritability and interindividual variability of regional structure-function coupling“
|
Z. Gu, K. W. Jamison, M. R. Sabuncu, A. Kuceyeski | Nature Communications 12, 2021. DOI: 10.1038/s41467-021-25184-4 |
| “Closed-loop wavefront sensing and correction in the mouse brain with computed optical coherence microscopy” | Siyang Lu, Fei Xia, Xusan Yang, Meiqi Wu, Laurie A. Bizimana, Chris Xu, and Steven G. Adie |
Biomedical Optics Express, Vol. 12, Number 8. August , 2021. DOI: |
| “Multicolor three-photon fluorescence imaging with single-wavelength excitation deep in mouse brain” | Yusaku Hontani, Fei Xia, and Chris Xu |
Science Advances, Vol. 7, Number 12. March 17, 2021. DOI: |
| “Three-photon neuronal imaging in deep mouse brain” | Tianyu Wang and Chris Xu |
Optica, Vol. 7, Issue 8, pp. 947-960 DOI: |
| “Deep three-photon imaging of the brain in intact adult zebrafish” | Dawnis M. Chow, David Sinefeld, Kristine E. Kolkman, Dimitre G. Ouzounov, Najva Akbari, Rose Tatarsky, Andrew Bass, Chris Xu, and Joseph R. Fetcho | Nature Methods, April 27, 2020, 1548-7091, 1548-7105 DOI: 10.1038/s41592-020-0819-7 |
| “Surgical preparations, labeling strategies, and optical techniques for cell-resolved, in vivo imaging in the mouse spinal cord” | Yu-Ting Cheng, Kawasi M. Lett, and Chris B. Schaffer | Experimental Neurology, August 2019, Volume 318, 192-204 DOI: 10.1016/j.expneurol.2019.05.010 |
| “Simultaneous Two- and Three-photon Imaging of Multilayer Neural Activities with Remote Focusing” | Aaron T. Mok, Tianyu Wang, Fei Xia, Chunyan Wu, and Chris Xu. | Conference on Lasers and Electro-Optics, OSA Technical Digest (Optical Society of America, 2019), paper AM1I.5. DOI: 10.1364/CLEO_AT.2019.AM1I.5 |
| “Quantitative analysis of 1300-nm three-photon calcium imaging in the mouse brain” | Tianyu Wang, Chunyan Wu, Dimitre G Ouzounov, Wenchao Gu, Fei Xia, Minsu Kim, Xusan Yang, Melissa R Warden, and Chris Xu | eLife 2020;9:e53205. DOI: 10.7554/eLife.53205 |
| “An adaptive excitation source for high-speed multiphoton microscopy” | Bo Li, Chunyan Wu, Mengran Wang, Kriti Charan, and Chris Xu | Nature Methods 17, 163–166 (2020). DOI: 10.1038/s41592-019-0663-9 |
| “Deep convolutional neural networks for segmenting 3D in vivo multi photon images of vasculature in Alzheimer disease mouse models” | Mohammad Haft-Javaherian, Linjing Fang, Victorian Muse, Chris B. Schaffer, Nozomi Nishimura, Mert R. Sabuncu | PLOS ONE, 14(3), e0213539, 2019. |
| “Ensemble learning with 3D convolutional neural networks for functional connectome-based prediction” | Meenakshi Khosla, Keith Jamison, Amy Kuceyeski, Mert R. Sabuncu | NeuroImage, 199, 651-662, 2019. |
| “GCaMP6 ΔF/F dependence on the excitation wavelength in 3-photon and 2-photon microscopy of mouse brain activity” | Dimitre G. Ouzounov, Tianyu Wang, Chunyan Wu, Chris Xu | Biomedical Opt. Express, 10(7), 3343-3352, 2019. |
| “A Bayesian Disease Progression Model for Clinical Trajectories” | Yingying Zhu, Mert R. Sabuncu | Graphs in Biomedical Image Analysis and Integrating Medical Imaging and Non-Imaging Modalities (pp. 57-65). Springer International Publishing, 2019. |
|
“Impact of the emission wavelengths on in vivo multiphoton imaging of mouse brains” |
Mengran Wang, Minsu Kim, Fei Xia, and Chris Xu | Biomed. Opt. Express 10, 1905-1918, 2019. |
| “Comparison of emission wavelengths for in vivo deep imaging of mouse brain” | Mengran Wang, Minsu Kim, Fei Xia, and Chris Xu | Proc. SPIE 10882, Multiphoton Microscopy in the Biomedical Sciences XIX, 108822I, 2019. |
| “Three-photon imaging of mouse brain structure and function through the intact skull” | Tianyu Wang, Dimitre G. Ouzounov, Chunyan Wu, Nicholas G. Horton, Bin Zhang, Cheng-Hsun Wu, Yanping Zhang, Mark J. Schnitzer, and Chris Xu | Nature Methods, 1548-7105, 2018. |
| “Comparing the effective attenuation lengths for long wavelength in vivo imaging of the mouse brain” | Mengran Wang, Chunyan Wu, David Sinefeld, Bo Li, Fei Xia, and Chris Xu | Biomed. Opt. Express, 9, 3534-3543, 2018. |
| “An adaptive excitation source for multiphoton imaging” | Bo Li, Mengran Wang, Chunyan Wu, Kriti Charan, and Chris Xu | CLEO Postdeadline Papers Session III, OSA Technical Digest, paper JTh5C.5, 2018. |
| “Comparison of excitation wavelengths for in vivo deep imaging of mouse brain” | Mengran Wang, Chunyan Wu, Bo Li, Fei Via, David Sinefeld, and Chris Xu | Proc. SPIE 10498, Multiphoton Microscopy in the Biomedical Sciences XVIII, 104982A, 2018. |
| “In vivo three-photon imaging of deep mouse cerebellum” | Mengran Wang, Tianyu Wang, Chunyan Wu, Bo Li, Dimitre G. Ouzounov, David Sinefeld, Akash Guru, Hyung-Song Nam, Mario R. Capecchi, Melissa R. Warden, and Chris Xu | Proc. SPIE 10498, Multiphoton Microscopy in the Biomedical Sciences XVIII, 1049816, 2018. |
| “Fiber-based, tunable repetition rate source for deep tissue two-photon fluorescence microscopy” | Kriti Charan, Bo Li, Mengran Wang, Charles P. Lin, and Chris Xu | Biomedical Optics Express, 9, 2304-2311, 2018. |
| “Generalized Cross Entropy Loss for Training Deep Neural Networks with Noisy Labels” | Zhilu Zhang and Mert R. Sabuncu | 32nd Conference on Neural Information Processing Systems (NeurIPS 2018), Montréal, Canada, 2018. |
| “Investigation of the long wavelength limit of soliton self-frequency shift in a silica fiber” | Bo Li, Mengran Wang, Kriti Charan, Ming-jun Li, and Chris Xu | Opt. Express 26, 19637-19647, 2018. |