Computer Vision and Pattern Discovery for Bioimages Group @ BII

  1. Liu, Wei & Kou, Connie & Park, Kun & Hwee-Kuan, Lee.
    Solving the inverse problem of time independent Fokker-Planck equation with a self supervised neural network method
    Scientific Reports (2021)

  2. Shiina, K., Mori, H., Tomita, Y. et al.
    Inverse Renormalization Group based on Image Super-Resolution using Deep Convolutional Networks
    Sci Rep 11, 9617 (2021).

  3. Park S, Saw SN, Li X, Paknezhad M, Coppola D, Dinish US, Ebrahim Attia AB, Yew YW, Guan Thng ST, Lee HK, Olivo M
    Model Learning Analysis of 3D Optoacoustic Mesoscopic Images for the Classification of Atopic Dermatitis
    Biomed Opt Express. 2021 May 27;12(6):3671-3683. doi: 10.1364/BOE.415105. PMID: 34221687; PMCID: PMC8221944.

  4. Saw, S.N., Biswas, A., Mattar, C.N.Z., Lee, H.K. and Yap, C.H.
    Machine learning improves early prediction of small-for-gestational-age births and reveals nuchal fold thickness as unexpected predictor.
    Prenatal Diagnosis (2021), 41: 505-516

  5. Paknezhad, Mahsa, Sheng Yang Michael Loh, Yukti Choudhury, Valerie Koh Cui Koh, Timothy Tay Kwang Yong, Hui Shan Tan, Ravindran Kanesvaran et al.
    Regional registration of whole slide image stacks containing major histological artifacts
    BMC bioinformatics 21, no. 1 (2020): 1-20

  6. Mustafa Umit Oner, Jared Marc Song Kye-Jet, Hwee Kuan Lee, Wing-Kin Sung
    Studying The Effect of MIL Pooling Filters on MIL Tasks

  7. Farhan Akram, Ping En Koh, Fuqiang Wang, Siqin Zhou, Sze Huey Tan, Mahsa Paknezhad, Sojeong Park, Tiffany Hennedige, Choon Hua Thng, Hwee Kuan Lee, Kiattisa Sommat
    Exploring MRI based radiomics analysis of intratumoral spatial heterogeneity in locally advanced nasopharyngeal carcinoma treated with intensity modulated radiotherapy
    PLoS ONE 15(10): e0240043 (2020)

  8. Yusuke Tomita, Kenta Shiina, Yutaka Okabe, and Hwee Kuan Lee
    Machine-learning study using improved correlation configuration and application to quantum Monte Carlo simulation
    Phys. Rev. E 102, 021302(R) (2020)

  9. Sojeong Park, Wooseop Kwak, Hwee Kuan Lee
    Accelerated spin dynamics using deep learning corrections
    Sci Rep 10, 13772 (2020)

  10. Kenta Shiina, Hiroyuki Mori, Yutaka Okabe, and Hwee Kuan Lee.
    Machine-Learning Studies on Spin Models.
    Sci Rep 10, 2177 (2020).

  11. Mundher Al-Shab, Hwee Kuan Lee, MAxine Tan
    Gated-Dilated Networks for Lung Nodule Classification in CT Scans
    IEEE access 7 (2019): 178827 - 178838

  12. Malay Singh, Emarene Mationg Kalaw, Wang Jie, Mundher Al-Shabi, Chin Fong Wong, Danilo Medina Giron, Kian-Tai Chong, Maxine Tan, Zeng Zeng, Hwee Kuan Lee
    Cribriform pattern detection in prostate histopathological images using deep learning models (2019)

  13. Connie (Khor Li) Kou, Hwee Kuan Lee, Teck Khim Ng, Jorge Sanz.
    An Efficient Network for Predicting Time-varying Distributions

  14. Connie Kou, Hwee Kuan Lee, Jorge Sanz, Teck Khim Ng
    Theoretical and Experimental Analysis on the Generalizability of Distribution Regression Network
    Neurocomputing, 2020, ISSN 0925-2312

  15. ZV Lim*, F Akram*, CP Ngo, AA Winarto, WQ Lee, K Liang, HH Oon, STG Thng, HK Lee
    Automated grading of acne vulgaris by deep learning with convolutional neural networks
    Skin Research and Technology (2019)
    (*equal contribution)

  16. Connie (Khor Li) Kou, Hwee Kuan Lee, Teck Khim Ng.
    A Compact Network Learning Model for Distribution Regression
    Neural Networks 110 (2019): 199-212.

  17. Daniel Aitor Holdbrook*, Malay Singh*, Yukti Choudhury, Emarene Mationg Kalaw, Valerie Koh, Hui Shan Tan, Ravindran Kanesvaran, Puay Hoon Tan, John Yuen Shyi Peng, Min-Han Tan, and Hwee Kuan Lee.
    Automated renal cancer grading using nuclear pleomorphic patterns.
    JCO Clinical Cancer Informatics, 2, 1-12 (2018)
    *Both authors contributed equally.

  18. Oleg V. Grinchuk, Surya Pavan Yenamandra, Ramakrishnan Iyer, Malay Singh, Hwee Kuan Lee, Igor V. Kurochkin, Kiat Hon Lim, Pierce K. H. Chow, and Vladimir A. Kuznetsov.
    Tumor-adjacent tissue co-expression profile analysis reveals pro-oncogenic gene signature for prognosis of resectable hepatocellular carcinoma.
    Molecular oncology, 12(1), 89-113 (2018).

  19. Monisha E. Nongpiur, Eray Atalay, Tianxia Gong, Michael Loh, Hwee Kuan Lee, Mingguang He, Shamira Perera, Tin Aung
    Anterior segment imaging-based subdivision of subjects with primary angle closure glaucoma.
    Eye 31, 572-577 (2017)

  20. Michael Loh, Yoshitaka Ogawa, Sara Kawana, Koichiro Tamura, Hwee Kuan Lee.
    Semi-automated quantitative Drosophila wings measurements.
    BMC Bioinformatics 18.1 (2017): 319.

  21. Malay Singh, Emarene Mationg Kalaw, Danilo Medina Giron, Kian-Tai Chong, Chew Lim Tan, Hwee Kuan Lee.
    Gland segmentation in prostate histopathological images.
    Journal of Medical Imaging 4.2 (2017): 027501-027501.

  22. N. Bougen-Zhukova, S. Loh, Hwee Kuan Lee, L-H Loo.
    Large-scale image-based screening and profiling of cellular phenotype.
    Cytometry A 91.2 (2017): 115-125.

  23. Ferrro, Francesco, Mafalda Lopes da Silva, William Grimes, Hwee Kuan Lee, Robin Ketteler, Janos Kriston-Vizi, Daniel F. Cutler.
    Weibel-Palade body size modulates the adhesive activity of its von Willebrand Factor cargo in cultured endothelial cells.
    Scientific Reports 6 (2016): 32473

  24. Westmoreland D, Michael Shaw, William Grimes, Metcalf DJ, Burden JJ, Gomez K, Knight AE, Daniel F. Cutler.
    Super-resolution microscopy as a potential approach to diagnosis of platelet granule disorders.
    Journal of Thrombosis and Haemostasis, 14.4 (2016) 839-849.

  25. Satoshi Sashida, Yutaka Okabe, Hwee Kuan Lee.
    Application of Monte Carlo simulation with block-spin transformation based on the Mumford-Shah segmentation model to three-dimensional biomedical images.
    Computer Vision and Image Understanding 152 (2016): 176-189.

  26. Phi-Vu Nguyen, Ali Ghezali, Ya-Chih Hsueh, Thomas Boudier, Samuel Ken-En Gan, Hwee Kuan Lee.
    Optimal processing for gel electrophoresis images: applying Monte Carlo Tree Search in GelApp.
    Electrophoresis 37 (2016): 2208–2216.

  27. Simone Fiori, Tianxia Gong, Hwee Kuan Lee.
    Bivariate Nonisotonic Statistical Regression by a Lookup Table Neural System.
    Cognitive Computation 7.6 (2015): 715-730.

  28. Yang Wei Koh, Adelene Y. L. Sim, Hwee Kuan Lee.
    Dynamical traps in Wang-Landau sampling of continuous systems: Mechanism and solution.
    Physical Review E 92.2 (2015): 023306.

  29. Choon K Yap, Emarene M Kalaw, Malay Singh, Kian T Chong, Danilo M Giron, Chao-Hui Huang, Li Cheng, Yan N Law, Hwee Kuan Lee.
    Automated image based prominent nucleoli detection.
    Journal of Pathology Informatics 6.1 (2015): 39.

  30. Hwee Kuan Lee, Yan Nei Law, Chao-Hui Huang, Choon Kong Yap.
    Analyzing Cell And Tissue Morphologies Using Pattern Recognition Algorithms.
    Biomedical Image Understanding, Methods and Applications (eds J.-H. Lim, S.-H. Ong and W. Xiong), John Wiley & Sons, Inc, Hoboken, NJ, USA. doi: 10.1002/9781118715321.ch4

  31. Jia-Zhi Sim, Phi-Vu Nguyen, Hwee Kuan Lee, Samuel Ken-En Gan.
    GelApp: Mobile gel electrophoresis analyser.
    Nature Methods Application Notes doi:10.1038964

  32. John Lim, Hwee Kuan Lee, Weimiao Yu, Sohail Ahmed.
    Light Sheet Fluorescence Microscopy (LSFM): Past, Present and Future.

  33. Kai-Ling Yong, Tianxia Gong, Monisha E. Nongpiur, Alicia C How, Hwee Kuan Lee, Cheng Li, Shamira A. Perera, Tin Aung.
    Myopia in Asian Subjects with Primary Angle Closure: Implications for Glaucoma Trends in East Asia.

  34. Satoshi Sashida, Yutaka Okabe, Hwee Kuan Lee.
    Comparison of Multi-Label Graph Cuts Method and Monte Carlo Simulation with Block-Spin Transformation for the Piecewise Constant Mumford-Shah Segmentation Model.
    Computer Vision and Image Understanding,2014;119:15-26.

  35. Monisha E. Nongpiur, Tianxia Gong, Hwee Kuan Lee, Shamira A. Perera, Li Cheng, Li-Lian Foo, Mingguang He, David S. Friedman, Tin Aung
    Subgrouping of Primary Angle-Closure Suspects Based on Anterior Segment Optical Coherence Tomography Parameters.

  36. Yan Nei Law, Hwee Kuan Lee, Andy M. Yip
    Learning Dynamical Shape Prior for Level Set Based Cell Tracking.
    Annals of the BMVA,2013;6:1-14.

  37. Yan Nei Law
    Cell Tracking Using Phase-Adaptive Shape Prior.
    Journal of Microscopy,2013;252(2):149-158.

  38. Yang Wei Koh, Hwee Kuan Lee, Yutaka Okabe
    Dynamically Optimized Wang-Landau Sampling with Adaptive Trial Moves and Modification Factors.
    Physical Review E,2013;88(5):053302-053310.

  39. Turgay Celik, Hwee Kuan Lee, Andrea Petznick, Louis Tong.
    Bioimage Informatics Approach to Automated Meibomian Gland Analysis in Infrared Images of Meibography.
    Journal of Optometry,2013;6(4):194-204.

  40. Celeste P Guzman, Tianxia Gong, Monisha E. Nongpiur, Shamira A. Perera, Alicia C. How, Hwee Kuan Lee, Li Cheng, Mingguang He, Mani Baskaran and Tin Aung.
    Anterior Segment Optical Coherence Tomography Parameters in Subtypes of Primary Angle Closure.
    Invest. Ophthalmol. Vis. Sci.,2013;54:5281-5286.

  41. Turay Celik, Hwee Kuan Lee.
    Comments on "A Robust Fuzzy Local Information C-Means Clustering Algorithm".
    IEEE Transactions on Image Processing,2013;22(3):1258-1261.

  42. Chao-Hui Huang, Shvetha Sankaran, Daniel Racoceanu, Srivats Hariharan, Sohail Ahmed.
    Online 3-D Tracking of Suspension Living Cells Imaged with Phase-Contrast Microscopy.
    IEEE Transactions on Biomedical Engineering,2012;59(7):1924-1933.

  43. Yan Nei Law, Victor Racine, Pei Ling Ang, Hanifa Mohamed, Piang Chin Soo, Jacqueline M. Veltmaat, and Hwee Kuan Lee.
    Development of MammoQuant: An Automated Quantitative Tool for Standardized Image Analysis of Murine Mammary Gland Morphogenesis.
    Journal of Medical Imaging and Health Informatics,2012;2(4):352-365.

  44. Yang Wei Koh, Turgay Celik, Hwee Kuan Lee, Andrea Petznick, Louis Tong.
    Detection of Meibomian Glands and Classification of Meibography Images.
    J.Biomed. Optics,2012;17(8):086008-086014.

  45. Turgay Celik.
    Two-dimensional Histogram Equalization and Contrast Enhancement.
    Pattern Recognition,2012;45(10):3810-3824.

  46. Yan Nei Law, Hwee Kuan Lee, Michael K. Ng and Andy M. Yip.
    A Semi-Supervised Segmentation Model for Collections of Images.
    IEEE Transactions on Image Processing,2012;21(6):2955-2968.

  47. Yan Nei Law, Andy M. Yip, Hwee Kuan Lee.
    Automatic Measurement of Volume Percentage Stroma in Endometrial Images Using Texture Segmentation.
    Journal of Microscopy,2011;241(2):171-178.

  48. Birgit Eisenhaber, Michaela Sammer, Wai Heng Lua, Wolfgang Bebetka, Lai Ling Liew, Weimiao Yu, Hwee Kuan Lee, Manfred Koranda, Frank Eisenhaber, and Sharmila Adhikari.
    Nuclear Import of a Lipid-Modified Transcription Factor: Mobilization of NFAT5 Isoform A by Osmotic Stress.
    Cell Cycle,2011;10(22):3897-3911.

  49. Yan Nei Law, Hwee Kuan Lee, Andy M. Yip.
    Subspace Learning for Mumford-Shah Model Based Texture Segmentation through Texture Patches.
    Applied Optics,2011;50(21):3947-3957.

  50. Hiroshi Watanabe, Satoshi Sashida, Yutaka Okabe, Hwee Kuan Lee.
    Monte Carlo Methods for Optimizing the Piece-Wise Constant
    Mumford-Shah Segmentation Model.
    New J.Phys,2011;13:023004.

  51. Mohammad Shorif Uddin, Hwee Kuan Lee, Preibisch S, Tomancak P.
    Restoration of Uneven Illumination in Light Sheet Microscopy Images.
    Microsc. Microanal,2011;17(4):607-13.

  52. Yan Nei Law, Hwee Kuan Lee, Chaoqiang Liu, Andy M. Yip.
    A Variational Model for Segmentation of Overlapping Objects with Additive Intensity Value.
    IEEE Trans. Img. Proc,2011;20(6):1495-1503.

  53. Zong Hong Zhang, Hwee Kuan Lee, Ivana Mihalek.
    Reduced Representation of Protein Structure: Implications on Efficiency and Scope of Detection of Structural Similarity.
    BMC Bioinformatics,2010;11:155.

  54. Jagadish Sankaran, Xianke Shi, Liang Yoong Ho, Ernst H.K. Stelzer, Thorsten Wohland.
    ImFCS: A Software for Imaging FCS Data Analysis and Visualization.
    Optics Express,2010;18(25):25468-25481.

  55. Yan Nei Law, Hwee Kuan Lee, Andy M. Yip.
    Semi-Supervised Subspace Learning for Mumford-Shah Model Based Texture Segmentation.
    Optics Express,2010;18(5):4934-4448.

  56. Weimiao Yu, Hwee Kuan Lee et al.
    Evolving Generalized Voronoi Diagram of Active Contours for Accurate Cellular Image Segmentation.
    Cytometry Part A,2010;77A:379-386.

  57. Yan Nei Law, S. Ogg, et al.
    Automated Protein Distribution Detection in High-Throughput Image-Based siRNA Library Screens.
    Journal of Signal Processing Systems,2009;55:1-13.

  58. Hwee Kuan Lee, Mohammad Shorif Uddin, Shvetha Sankaran, Srivats Hariharan, Sohail Ahmed.
    A Field Theoretical Restoration Method for Images Degraded by Non-Uniform Light Attenuation : An Application for Light Microscopy.
    Optics Express,2009;17(14):11294-11308.
    (selected to be published again in the Virtual Journal of Biomedical Optics,2009;4:11294-11308)

  59. Weimiao Yu, Hwee Kuan Lee, S. Hariharan, Wenyu Bu, S. Ahmed.
    Quantitative Neurite Outgrowth Measurement Based on Image Segmentation with Topological Dependence.
    Cytometry A,2008;75A:289-297.

  60. Yan Nei Law, Hwee Kuan Lee, Andy M. Yip.
    A Multi-Resolution Stochastic Level Set Method for Mumford-Shah Image Segmentation.
    IEEE Trans. Img. Proc.,2008;17(12):2289-2300.
    CAM Report 07-43 (2007)