Publication Highlights

Patents & Patent Applications


  1. Ye, Jong Chul, Shujaat Khan and Jaeyoung Huh. “Apparatus and method for processing ultrasound image in various sensor conditions.” U.S. Patent 11,478,225, issued October 25, 2022. [online]
  2. Muhammad Moinuddin, Ubaid M Al-saggaf, Abdulrahman U Alsaggaf, Shujaat Khan, Syed Sajjad Hussain Rizvi, “Convolutional neural networks based computationally efficient method for equalization in FBMC-OQAM system” U.S. Patent 11,368,349, issued June 21, 2022[online]
  3. Ye, Jong Chul, Shujaat Khan and Jaeyoung Huh. “Method for processing ultrasound image in various sensor conditions and apparatus therefor (다양한센서조건에서의초음파영상처리장치및그방법).” KR. Patent 10‑23173370000, App. 1020190092146, issued October 20, 2021 [online]
  4. Ye, Jong Chul, Yeo Hun Yoon, Shujaat Khan and Jaeyoung Huh. “Image processing apparatus using neural network and method performed by image processing apparatus.” U.S. Patent 11,145,028, issued October 12, 2021[online]
  5. Ye, Jong Chul, Shujaat Khan and Jaeyoung Huh. “Ultrasound image processing method using switchable neural network and apparatus therefor (전환가능한뉴럴네트워크를이용한초음파영상처리방법및그장치).” KR Patent App. 2020R1A2B5B0300198011 (2020.08.31)
  6. Ye, Jong Chul, Jaeyoung Huh and Shujaat Khan. “Multi‑domain ultrasound image processing method using single neural network based on unsupervised learning and apparatus therefor”(비지도학습기반단일뉴럴네트워크를이용한다중초음파영상처리방법및그장치).” KR Patent App.2020R1A2B5B0300198011 (2020.07.10) [online]

Book Chapter

  1. Jaeyoung Huh, Shujaat Khan and Jong Chul Ye. “Ultrasound Image Artifact Removal using Deep Neural Networks.” in Deep Learning for Biomedical Image Reconstruction, J. C. Ye, Y. C. Eldar, and M. Unser, Eds. Cambridge: Cambridge University Press, 2023, pp. 252–276. [online]

Selected Peer-Reviewed Journal Papers

2024

  1. Shujaat Khan. "Deep-Representation-Learning-Based Classification Strategy for Anticancer Peptides" Mathematics, Volume 12(9), April 2024, 1330 [online]

2023

  1. Yukun Guo, Shujaat Khan, Abdul Wahab, Xianchao Wang. "Multipolar Acoustic Source Reconstruction From Sparse Far-Field Data Using ALOHA" IEEE Signal Processing Letters, Volume 30, November 2023, 1627-1631 [online]
  2. Seongyong Park, Abdul Wahab, Muhammad Usman, Imran Naseem, Shujaat Khan*. “Highlights in Artificial Intelligence in Bioimaging and Signal Processing in 2023" Frontiers in Physiology, Volume 14, Jul 2023, 1267632, [online]
  3. Seongyong Park, Abdul Wahab, Minseok Kim, Shujaat Khan*. “Self-Supervised Learning for Inter-laboratory Variation Minimization in Surface Enhanced Raman Scattering Spectroscopy” Analyst, 148, 1473-1482, Feb, 2023.[online]  This article is part of the themed collection: Analyst HOT Articles 2023
  4. Seongyong Park, Mohammad Sohail Ibrahim, Abdul Wahab, Shujaat Khan*. “GMDM: A generalized multi-dimensional distribution overlap metric for data and model quality evaluation” Digital Signal Processing, April, 2023.[online]
  5. Jaeyoung Huh, Shujaat Khan, Sungjin Choi, Dongkuk Shin, Eun Sun Lee, and Jong Chul Ye. “Tunable Image Quality Control of 3-D Ultrasound using Switchable CycleGAN.” Medical Image Analysis, January, 2023. [online]

2022

  1. Muhammad Moinuddin, Shujaat Khan*, Abdulrahman Ubaid Alsaggaf, Mohammed Jamal Abdulaal, Ubaid M. Al‑Saggaf, Jong Chul Ye. “Medical Ultrasound Image Speckle Reduction and Resolution Enhancement Using Texture Compensated Multi-Resolution Convolution Neural Network” Frontiers in Physiology, November, 2022.[online]
  2. Abdul Wahab, Shujaat Khan, Imran Naseem, and Jong Chul Ye. “Performance Analysis of Fractional Learning Algorithms” IEEE Transactions on Signal Processing, October, 2022.[online]
  3. Syed Muhammad Atif, Shujaat Khan+, Imran Naseem, Roberto Togneri, Mohammed Bennamoun. “Multi‑Kernel Fusion for RBF Neural Networks.” Neural Processing letters, June. 2022. [online]
  4. Alishba Sadiq, Imran Naseem, Shujaat Khan, Muhammad Moinuddin, Roberto Togneri, and Mohammed Bennamoun. “A Novel Quantum Calculus‑based Complex Least Mean Square Algorithm (q‑CLMS).” Applied Intelligence, April, 2022.[online]
  5. Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. “Switchable and Tunable Deep Beamformer using Adaptive Instance Normalization for Medical Ultrasound.” IEEE Transactions on Medical Imaging, 41, no. 2 (2022): 266-278., [online] [SlideShare]
  6. Seongyong Park, Jaeseok Lee, Shujaat Khan, Abdul Wahab, Minseok Kim. “Machine Learning-Based Heavy Metal Ion Detection Using Surface-Enhanced Raman Spectroscopy.” Sensors, January. 2022, [online]

2021


  1. Seongyong Park, Jaeseok Lee, Shujaat Khan, Abdul Wahab, Minseok Kim. “SERSNet: Surface-Enhanced Raman Spectroscopy Based Biomolecule Detection Using Deep Neural Network.” Biosensors, November. 2021, [online]
  2. Muhammad Usman, Shujaat Khan, Seongyong Park, Jeong‑A Lee. “AoP‑LSE: Antioxidant Proteins Classification Using Deep Latent Space Encoding of Sequence Features.” Current Issues in Molecular Biology: (Bioinformatics and Systems Biology section), September. 2021, [online]
  3. Muhammad Usman, Shujaat Khan*+, Seongyong Park, Abdul Wahab. “AFP‑SRC: Identification of Antifreeze Proteins Using Sparse Representation Classifier.” Neural Computing and Applications, September. 2021, [online]
  4. Ubaid M. Al‑Saggaf, Muhammad Usman, Imran Naseem, Muhammad Moinuddin, Ahmad A. Jiman, Mohammed U. Alsaggaf, Hitham K. Alshoubaki and Shujaat Khan*. “ECM‑LSE: Prediction of Extracellular Matrix Proteins using Deep Latent Space Encoding of k‑Spaced Amino Acid Pairs.” Frontiers in Bioengineering and Biotechnology, September. 2021, [online]
  5. Abdul Wahab, Shujaat Khan, and Farrukh Zeeshan Khan. ‘Comments on “Design of momentum fractional LMS for Hammerstein nonlinear system identification with application to electrically stimulated muscle model”.’ European Physical Journal Plus, (2021) 136:1004, [online]
  6. Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. “Variational Formulation of Unsupervised Deep Learning for Ultrasound Image Artifact Removal.” IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control, vol. 68, no. 6, pp. 2086‑2100, June. 2021, [online] [SlideShare]

2020


  1. Shujaat Khan, Abdul Wahab, Imran Naseem and Muhammad Moinuddin . ‘Comments on “Design of fractional‑order variants of complex LMS and NLMS algorithms for adaptive channel equalization”.’ Nonlinear Dynamics, vol. 101, no. 2, pp. 1053–1060, August. 2020, [online]
  2. Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. “Adaptive and Compressive Beamforming Using Deep Learning for Medical Ultrasound.” IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control, vol. 67, no. 8, pp. 1558‑1572, Aug. 2020, [online] [SlideShare]
  3. Muhammad Usman, Shujaat Khan, and Jeong‑A Lee. “AFP‑LSE: Antifreeze Proteins Prediction Using Latent Space Encoding of Composition of k‑Spaced Amino Acid Pairs.” Scientific Reports 10, 7197 (2020). [online]
  4. Abdul Wahab, and Shujaat Khan. ‘Comments and Corrections Comments on “Fractional Extreme Value Adaptive Training Method: Fractional Steepest Descent Approach”.’ IEEE Transactions on Neural Networks and Learning Systems, vol. 31, no. 3, pp. 1066‑1068, March 2020, [online]

2019


  1. Alishba Sadiq, Shujaat Khan, Imran Naseem, Roberto Togneri, and Mohammed Bennamoun. “Enhanced q‑least Mean Square.” Circuits, Systems, and Signal Processing 38, no.10 (2019): 4817‑4839. [online]
  2. Yeo Hun Yoon, Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. “Efficient b‑mode ultrasound image reconstruction from sub‑sampled rf data using deep learning.” IEEE Transactions on Medical Imaging 38, no. 2 (2019): 325‑336. [online]

2018


  1. Shujaat Khan, Imran Naseem, Muhammad Ammar Malik, Roberto Togneri, and Mohammed Bennamoun. “A fractional gradient descent‑based rbf neural network.” Circuits, Systems, and Signal Processing 37, no. 12 (2018): 5311‑5332. [online]
  2. Tasawar Abbas, Shujaat Khan, Muhammad Sajid, Abdul Wahab, Jong Chul Ye, “Topological sensitivity based far‑field detection of elastic inclusions.” Results in Physics, Volume 8, March 2018, Pages 442‑460, ISSN 2211‑3797. [online]
  3. Shujaat Khan, Jawwad Ahmad, Imran Naseem, and Muhammad Moinuddin. “A Novel Fractional Gradient‑Based Learning Algorithm for Recurrent Neural Networks.” Circuits, Systems, and Signal Processing 37, no. 2 (2018): 593‑612. [online]
  4. Shujaat Khan, Imran Naseem, Roberto Togneri, and Mohammed Bennamoun, “RAFP‑Pred: Robust Prediction of Antifreeze Proteins Using Localized Analysis of n‑Peptide Compositions” IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 15, no. 1, pp. 244‑250, Jan.‑Feb. 1 2018. [online]

2017


  1. Shujaat Khan, Imran Naseem, Roberto Togneri, and Mohammed Bennamoun. “A Novel Adaptive Kernel for the RBF Neural Networks.” Circuits, Systems, and Signal Processing, 36, no. 4 (2017): 1639‑1653. [online]
  2. Imran Naseem, Shujaat Khan, Roberto Togneri, and Mohammed Bennamoun. “ECMSRC: A Sparse Learning Approach for the Prediction of Extracellular Matrix Proteins.” Current Bioinformatics 12 (2017): 361‑368 [online]

Selected Abstracts, Posters and Conference Proceedings

  1. Jaeyoung Huh, Shujaat Khan, Eun Sun Lee and Jong Chul Ye. “Ultrasound Image Quality Control Using Speech-Assisted Switchable CycleGAN'.” in ICASSP 2023 ‑ 2023 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP),  XXX, 2023 [XXX]
  2. Jaeyoung Huh, Shujaat Khan, and Jong Chul Ye. “Multi‑Domain Unpaired Ultrasound Image Artifact Removal Using a Single Convolutional Neural Network.” in ICASSP 2022 ‑ 2022 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP),  Singapore, 2022 [online]
  3. Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. “Contrast and Resolution Improvement of POCUS Using Self‑Consistent CycleGAN.” in Domain Adaptation and Representation Transfer, and Affordable Healthcare and AI for Resource Diverse Global Health. DART 2021, FAIR 2021. Lecture Notes in Computer Science, vol 12968. Springer, Cham., Strasbourg, France, [online] [SlideShare]
  4. Jaeyoung Huh, Shujaat Khan, and Jong Chul Ye. “Unsupervised Learning for Acoustic Shadowing Artifact Removal in Ultrasound Imaging.” in 2021 IEEE International Ultrasonics Symposium (IUS), Xi’an, China, 2021, [online] 
  5. Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. “Unsupervised Deep Learning for Accelerated High Quality Echocardiography.” in 2021‑IEEE International Symposium on Biomedical Imaging (ISBI‑2021), Nice, France.[online] [SlideShare]
  6. Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. “Switchable Deep Beamformer for Ultrasound Imaging Using AdaIN.” in 2021‑IEEE International Symposium on Biomedical Imaging (ISBI‑2021), Nice, France.[online] [SlideShare]
  7. Seongyong Park, Shujaat Khan, Muhammad Moinuddin, Ubaid M. Al‑Saggaf. “GSSMD: A new standardized effect size measure to improve robust‑ness and interpretability in biological applications,” in 2020 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Seoul, Korea(South), 2020, pp. 1096‑1099,[online]
  8. Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. “Unsupervised Deconvolution Neural Network for High Quality Ultrasound Imaging,” in 2020 IEEE International Ultrasonics Symposium (IUS), Las Vegas, NV, USA, 2020, pp. 1‑4,[online][video] [SlideShare]
  9. Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. “Universal Plane‑Wave Compounding for High Quality US Imaging Using Deep Learning.” in 2019 IEEE International Ultrasonics Symposium (IUS), Glasgow, United Kingdom, 2019, pp. 2345‑2347,[online] [SlideShare]
  10. Shujaat Khan, Jaeyoung Huh, Regev Cohen, Yonina Eldar and Jong Chul Ye. “Clutter Suppressed Deep Beamformer for Echocardiography using Deep Learning.” in 2019 IEEE International Ultrasonics Symposium (IUS), Glasgow, United Kingdom, 2019,[online][SlideShare][ABSTRACT‑POSTER] 
  11. Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. “Deep Learning‑based Universal Beamformer for Ultrasound Imaging.” in the 22nd International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), MICCAI 2019. Lecture Notes in Computer Science, vol11768. Springer, Cham., October 13–17, 2019, Proceedings, Part V, Shenzhen, China.[online] [SlideShare]
  12. Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. ”Deep learning beamformer for variable rate ultrasound imaging.” in 2019‑Optics and Photonics, Wavelets and Sparsity XVIII. International Society for Optics and Photonics, 2019, San Diego, California, United States.[online][video][ABSTRACT‑ORAL]
  13. Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. ”Universal Deep Beamformer for Variable Rate Ultrasound Imaging.” in 2019‑IEEE International Symposium on Biomedical Imaging (ISBI‑2019), Venice, Italy.[online][ABSTRACT‑POSTER] 

Selected pre‑prints & in‑review Papers


  1. Shujaat Khan, Jaeyoung Huh, and Jong Chul Ye. “Phase Aberration Robust Beamformer for Planewave US Using Self-Supervised Learning.” [online] (since February. 2022).
  2. Seongyong Park, and Shujaat Khan*. “A Novel Metric for Robust and Interpretable Bioassay Applications.” In revision: Computer Sciences & Mathematics Forum, (since Jan. 2022). 
  3. Seongyong Park, and Shujaat Khan*. “ ovltools: An R package to estimate distribution overlap between two arbitrary distributions.” In revision: Computer Sciences & Mathematics Forum, (since Jan. 2022). 
  4. Jaeyoung Huh, Shujaat Khan, and Jong Chul Ye. “OT‑driven Multi‑Domain Unsupervised Ultrasound Image Artifact Removal using a Single CNN.”[online]
  5. Seongyong Park, Shujaat Khan, Abdul Wahab. “E3‑targetPred: Prediction of E3‑target proteins using deep latent space encoding.” In revision: IEEE/ACM Transactions on Computational Biology and Bioinformatics, (since May. 2021). [online]

∗ Corresponding Author, + Co‑first author/Equal Contribution