Selected Publications

Nanoscale2024
  • Deep-Learning-Assisted Spectroscopic Single-Molecule Localization Microscopy Based on Spectrum-to-Spectrum Denoising
  • D. Xu, Y. Gu, J. Lu, L. Xu, W. Wang, and B. Dong
  • Nanoscale 16, 5729-5736 (2024)

    • A self-supervised deep-learning network based on spectrum-to-spectrum (Spec2Spec) framework was developed to accurately extract spectral information from low-SNR spectra in sSMLM. We proposed a re-sampling and re-integrating module for generating Spec2Spec training pairs. As the signals of spatially adjacent pixels as closely correlated while the noise is independent, the sub-images sampled from the raw image can be served as the training input and target. This scheme overcomes the difficulty in acquiring ground truth images in sSMLM. By validating the qualitative and quantitative performance of Spec2Spec on simulated and experimental data, we demonstrated that Spec2Spec can achieve 6-fold improvement in SNR and 3-fold enhancement in SSIM, further facilitating 94.6% spectral classification accuracy and nearly 100% data utilization ratio in dual-color sSMLM imaging.

    JBHI2023
  • SegCoFusion: An Integrative Multimodal Volumetric Segmentation Cooperating With Fusion Pipeline to Enhance Lesion Awareness
  • Y. Gu; Y. Guan; Z. Yu, and B. Dong
  • IEEE Journal of Biomedical and Health Informatics 27, 5860-5871 (2023)

    • An integration of multimodal segmentation and fusion, namely SegCoFusion, which consists of a novel feature frequency dividing network named FDNet and a segmentation part using a dual-single path feature supplementing strategy to optimize the segmentation inputs and suture with the fusion part. The qualitative and quantitative results demonstrate that SegCoFusion can break the ceiling both of segmentation and fusion methods.

    usCCW
  • Disposable ultrasound-sensing chronic cranial window by soft nanoimprinting lithography
  • H. Li*, B. Dong*, X. Zhang*, X. Shu, X. Chen, R. Hai, D. Czaplewski, H. F. Zhang, and C. Sun
  • Nature Communications 10, 4277 (2019)

    • A disposable ultrasound-sensing chronic cranial window (usCCW) featuring an integrated transparent nanophotonic ultrasonic detector fabricated using soft nanoimprint lithography process. We optimize the sensor design and the associated fabrication process to significantly improve detection sensitivity and reliability, which are critical for the intend longitudinal in vivo investigations. Using this usCCW, we demonstrate photoacoustic microscopy of cortical vascular network in live mice over 28 days.

    TBME2017
  • Optical detection of ultrasound in photoacoustic imaging
  • B. Dong, C. Sun, and H. F. Zhang
  • IEEE Transactions on Biomedical Engineering 64, 4 (2017)

    • A comprehensive review introduced recent technological advances in optical methods of ultrasound detection by classifying them based on their implementations in photoacoustic imaging. An overall comparison of all the optical ultrasound detection methods was discussed and a theoretical framework was further introduced to generalize sensitivity, bandwidth, and spatial responses of optical ultrasound detection geometries.

  • Super-resolution intrinsic fluorescence imaging utilizing native, unmodified nucleic acids for contrast
  • B. Dong*, L. Almassalha*, Y. Stypula-Cyrus, B. E. Urban, J. E. Chandler, T. Nguyen, C. Sun, H. F. Zhang, and V. Backman
  • Proc. Natl. Acad. Sci. USA 113, 9716 (2016).

    • The first demonstration of sub-diffraction-resolution imaging of cellular structures using intrinsic contrast from unmodified DNA. With a demonstrated sub-20-nm resolution, this technique provides an ideal way to visualize the spatial organization of single or groups of nucleosomes and to quantitatively estimate the nucleosome occupancy level of DNA in unstained chromosomes and nuclei. It offers a unique possibility to study the DNA epigenetic states using sub-diffractional analysis of the chromosomal organization.

  • Super-resolution spectroscopic microscopy via photon localization
  • B. Dong*, L. Almassalha*, B. E. Urban*, T. Nguyen*, S. Khuon, T.-L. Chew, V. Backman, C. Sun, and H. F. Zhang
  • Nature Communications 7, 12290 (2016)

    • A wide-field spectroscopic optical super-resolution imaging technology, called spectroscopic photon localization microscopy, is capable of simultaneously capturing the spatial distributions of photons emitted by individual molecules and their inherent spectroscopic signatures with sub-nm spectral resolution.

  • Gigahertz all-optical modulation using reconfigurable nanophotonic metamolecules
  • B. Dong*, X. Chen*, F. Zhou, C. Wang, H. F. Zhang, and C. Sun
  • Nano Letters 16, 7690 (2016)

    • A novel design of "metamolecule" that supports co-localized magnetic resonance at optical frequency and vibration resonance at GHz frequency with a deep-sub-diffraction-limit spatial confinement (~lambda2/100). The coherent coupling of those two distinct resonances manifests a strong optical force allowing the metamolecules to dynamically change their optical properties upon the incident light.

  • Isometric multimodal photoacoustic microscopy based on optically transparent micro-ring ultrasonic detection
  • B. Dong, H. Li, Z. Zhang, K. Zhang, S. Chen, C. Sun, and H. F. Zhang
  • Optica 2, 169-176 (2015)

    • Development of a cover-slip type transparent optical ultrasonic sensor based on a polymeric micro-ring resonator to satisfy the high demands of ultrasonic sensing. Micro-ring resonator provides extremely high sensitivity, ultra-broad bandwidth, and wider angular sensitivity, offering a favorable solution for high-resolution photoacoustic microscopy. Its unique design further provides the ease of integrating photoacoustic microscopy with established microscopic modalities to achieve simultaneous multi-functional imaging.

    Full Publication list

    Peer-reviewed journals

    Book chapters

    Covers