Yang Song

Senior Lecturer
Scientia Fellow (Level C)

Dr Yang Song is an ARC Future Fellow, UNSW Scientia Fellow and Senior Lecturer in the School of Computer Science and Engineering. She graduated with a BEng in Computer Engineering from Nanyang Technological University, Singapore, and obtained a PhD degree in Computer Science from the University of Sydney in 2013.

Her research area is in Computer Vision, Biomedical Image Analysis, Machine Learning, Deep Learning, and General AI. She has over 130 peer-reviewed publications including papers in TMI, MedIA, TIP, NeuroImage, BMC Bioinformatics, CVPR, ICCV, AAAI, IJCAI, and MICCAI. Her current research mainly focuses on the development of machine learning and deep learning algorithms for computer vision problems such as:

  • Abnormality detection and segmentation 
  • Morphological analysis in microscopy images
  • Cell segmentation and tracking
  • Biomarker detection and analysis
  • General image classification
  • Object detection and recognition
  • 3D image reconstruction
  • Action recognition and video analysis
  • Vision language grounding

Personal website - http://www.cse.unsw.edu.au/~ysong/ 

Currently looking for a Research Associate to join the team! https://lnkd.in/gN7URVz

publications
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Conference Papers
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Wang H; Song Y; Zhang C; Yu J; Liu S; Pengy H; Cai W, 2021, 'Single neuron segmentation using graph-based global reasoning with auxiliary skeleton loss from 3D optical microscope images', in Proceedings - International Symposium on Biomedical Imaging, pp. 934 - 938, http://dx.doi.org/10.1109/ISBI48211.2021.9434071
2021
Cong C; Liu S; Ieva AD; Pagnucco M; Berkovsky S; Song Y, 2021, 'Texture enhanced generative adversarial network for stain normalisation in histopathology images', in Proceedings - International Symposium on Biomedical Imaging, IEEE, pp. 1949 - 1952, presented at 2021 IEEE 18th International Symposium on Biomedical Imaging (ISBI), 13 April 2021 - 16 April 2021, http://dx.doi.org/10.1109/ISBI48211.2021.9433860
2021
Chen Y; Song Y; Zhang C; Zhang F; O'Donnell L; Chrzanowski W; Cai W, 2021, 'Celltrack R-CNN: A novel end-to-end deep neural network for cell segmentation and tracking in microscopy images', in Proceedings - International Symposium on Biomedical Imaging, pp. 779 - 782, http://dx.doi.org/10.1109/ISBI48211.2021.9434057
2021
Rana P; Meijering E; Sowmya A; Song Y, 2021, 'Multi-label classification based on subcellular region-guided feature description for protein localisation', in Proceedings - International Symposium on Biomedical Imaging, IEEE, pp. 1929 - 1933, presented at 2021 IEEE 18th International Symposium on Biomedical Imaging (ISBI), 13 April 2021 - 16 April 2021, http://dx.doi.org/10.1109/ISBI48211.2021.9434145
2021
Zhang C; Song Y; Yao L; Cai W, 2020, 'Shape-oriented convolution neural network for point cloud analysis', in AAAI 2020 - 34th AAAI Conference on Artificial Intelligence, pp. 12773 - 12780
2020
Dodballapur V; Song Y; Huang H; Chen M; Chrzanowski W; Cai W, 2020, 'Dual-Stage Domain Adaptive Mitosis Detection for Histopathology Images', in 2020 Digital Image Computing: Techniques and Applications, DICTA 2020, http://dx.doi.org/10.1109/DICTA51227.2020.9363411
2020
Huang R; Song Y; Pagnucco M, 2020, 'An Improved Discriminator for GAN-Based Trajectory Prediction Models', in 2020 Digital Image Computing: Techniques and Applications, DICTA 2020, http://dx.doi.org/10.1109/DICTA51227.2020.9363414
2020
Cong C; Yang Z; Song Y; Pagnucco M, 2020, 'Towards Enforcing Social Distancing Regulations with Occlusion-Aware Crowd Detection', in 16th IEEE International Conference on Control, Automation, Robotics and Vision, ICARCV 2020, pp. 297 - 302, http://dx.doi.org/10.1109/ICARCV50220.2020.9305507
2020
Dodballapur V; Calisa R; Song Y; Cai W, 2020, 'Automatic Dropout for Deep Neural Networks', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 185 - 196, http://dx.doi.org/10.1007/978-3-030-63836-8_16
2020
Limarga R; Pagnucco M; Song Y; Nayak A, 2020, 'Non-monotonic Reasoning for Machine Ethics with Situation Calculus', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 203 - 215, http://dx.doi.org/10.1007/978-3-030-64984-5_16
2020
Xiang T; Zhang C; Liu D; Song Y; Huang H; Cai W, 2020, 'Bio-net: Learning recurrent bi-directional connections for encoder-decoder architecture', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 74 - 84, http://dx.doi.org/10.1007/978-3-030-59710-8_8
2020
Liu D; Zhang D; Song Y; Zhang F; O’Donnell L; Huang H; Chen M; Cai W, 2020, 'Unsupervised instance segmentation in microscopy images via panoptic domain adaptation and task re-weighting', in Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition, pp. 4242 - 4251, http://dx.doi.org/10.1109/CVPR42600.2020.00430
2020
Tang Z; Zhang D; Song Y; Wang H; Liu D; Zhang C; Liu S; Peng H; Cai W, 2020, '3D Conditional Adversarial Learning for Synthesizing Microscopic Neuron Image Using Skeleton-to-Neuron Translation', in Proceedings - International Symposium on Biomedical Imaging, pp. 1775 - 1779, http://dx.doi.org/10.1109/ISBI45749.2020.9098345
2020
Chu SW; Song Y; Zouo JJ; Cai W, 2019, 'Human Pose Estimation Using Deep Convolutional Densenet Hourglass Network with Intermediate Points Voting', in Proceedings - International Conference on Image Processing, ICIP, pp. 594 - 598, http://dx.doi.org/10.1109/ICIP.2019.8803789
2019
Jia H; Song Y; Huang H; Cai W; Xia Y, 2019, 'HD-Net: Hybrid Discriminative Network for Prostate Segmentation in MR Images', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Shenzhen, China, pp. 110 - 118, presented at International Conference on Medical Image Computing and Computer-Assisted Intervention MICCAI 2019, Shenzhen, China, 13 October 2019, http://dx.doi.org/10.1007/978-3-030-32245-8_13
2019
Wang H; Zhang D; Song Y; Liu S; Wang Y; Feng D; Peng H; Cai W, 2019, 'Segmenting neuronal structure in 3d optical microscope images via knowledge distillation with teacher-student network', in Proceedings - International Symposium on Biomedical Imaging, pp. 228 - 231, http://dx.doi.org/10.1109/ISBI.2019.8759326
2019
Wu Y; Xia Y; Song Y; Zhang D; Liu D; Zhang C; Cai W, 2019, 'Vessel-Net: Retinal vessel segmentation under multi-path supervision', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Shenzhen, China, pp. 264 - 272, presented at MICCAI 2019 - 22nd international conference, Shenzhen, China, October 13-17, 2019, Shenzhen, China, 13 October 2019 - 17 October 2019, http://dx.doi.org/10.1007/978-3-030-32239-7_30
2019
Zhang D; Song Y; Liu D; Zhang C; Wu Y; Wang H; Zhang F; Xia Y; O’Donnell LJ; Cai W, 2019, 'Efficient 3D Depthwise and Separable Convolutions with Dilation for Brain Tumor Segmentation', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Adelaide, SA, Australia, pp. 563 - 573, presented at AI 2019 Advances in Artificial Intelligence, Adelaide, SA, Australia, 02 December 2019, http://dx.doi.org/10.1007/978-3-030-35288-2_45
2019
Liu D; Zhang D; Song Y; Zhang C; Zhang F; O'Donnell L; Cai W, 2019, 'Nuclei segmentation via a deep panoptic model with semantic feature fusion', in IJCAI International Joint Conference on Artificial Intelligence, Macao, China, pp. 861 - 868, presented at 28th International Joint Conference on Artificial Intelligence - IJCAI-19 – August 10-16 2019, Macao, China, Macao, China, 10 August 2019 - 16 August 2019, http://dx.doi.org/10.24963/ijcai.2019/121
2019
Wang H; Zhang D; Song Y; Liu S; Huang H; Chen M; Peng H; Cai W, 2019, 'Multiscale kernels for enhanced u-shaped network to improve 3D neuron tracing', in IEEE Computer Society Conference on Computer Vision and Pattern Recognition Workshops, pp. 1105 - 1113, http://dx.doi.org/10.1109/CVPRW.2019.00144
2019
Zhang C; Song Y; Liu S; Lill S; Wang C; Tang Z; You Y; Gao Y; Klistorner A; Barnett M; Cai W, 2019, 'MS-GAN: GAN-Based Semantic Segmentation of Multiple Sclerosis Lesions in Brain Magnetic Resonance Imaging', in 2018 International Conference on Digital Image Computing: Techniques and Applications, DICTA 2018, http://dx.doi.org/10.1109/DICTA.2018.8615771
2019
Dodballapur V; Song Y; Huang H; Chen M; Chrzanowski W; Cai W, 2019, 'Mask-driven mitosis detection in histopathology images', in Proceedings - International Symposium on Biomedical Imaging, pp. 1855 - 1859, http://dx.doi.org/10.1109/ISBI.2019.8759164
2019
Wang H; Zhang D; Song Y; Liu S; Gao R; Peng H; Cai W, 2019, 'Memory and Time Efficient 3D Neuron Morphology Tracing in Large-Scale Images', in 2018 International Conference on Digital Image Computing: Techniques and Applications, DICTA 2018, http://dx.doi.org/10.1109/DICTA.2018.8615765
2019
Ke J; Deng J; Lu Y; Wang D; Song Y; Zhang H, 2019, 'Assessment and Elimination of Inflammatory Cell: A Machine Learning Approach in Digital Cytology', in 2019 Digital Image Computing: Techniques and Applications, DICTA 2019, http://dx.doi.org/10.1109/DICTA47822.2019.8946065
2019
Liu D; Zhang D; Song Y; Zhang C; Huang H; Chen M; Cai W, 2018, 'Large kernel refine fusion net for neuron membrane segmentation', in IEEE Computer Society Conference on Computer Vision and Pattern Recognition Workshops, pp. 2293 - 2301, http://dx.doi.org/10.1109/CVPRW.2018.00297
2018
Liu D; Zhang D; Song Y; Zhang F; O’Donnell LJ; Cai W, 2018, '3D Large Kernel Anisotropic Network for Brain Tumor Segmentation', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 444 - 454, http://dx.doi.org/10.1007/978-3-030-04239-4_40
2018
Liu D; Zhang D; Liu S; Song Y; Jia H; Feng D; Xia Y; Cai W, 2018, 'Densely connected large kernel convolutional network for semantic membrane segmentation in microscopy images', in Proceedings - International Conference on Image Processing, ICIP, pp. 2461 - 2465, http://dx.doi.org/10.1109/ICIP.2018.8451775
2018
Song Y; Chang H; Gao Y; Liu S; Zhang D; Yao J; Chrzanowski W; Cai W, 2018, 'Feature learning with component selective encoding for histopathology image classification', in Proceedings - International Symposium on Biomedical Imaging, pp. 257 - 260, http://dx.doi.org/10.1109/ISBI.2018.8363568
2018
Zhang C; Song Y; Zhang D; Liu S; Chen M; Cai W, 2018, 'Whole Slide Image Classification via Iterative Patch Labelling', in Proceedings - International Conference on Image Processing, ICIP, pp. 1408 - 1412, http://dx.doi.org/10.1109/ICIP.2018.8451551
2018
Huang Z; Ding C; Zhang L; Lee MZ; Song Y; Selvadurai H; Feng D; Zhang Y; Cai W, 2018, 'Automated Analysis of Chest Radiographs for Cystic Fibrosis Scoring', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 227 - 236, http://dx.doi.org/10.1007/978-3-030-00563-4_22
2018
Zhang D; Song Y; Liu D; Jia H; Liu S; Xia Y; Huang H; Cai W, 2018, 'Panoptic segmentation with an end-to-end cell R-CNN for pathology image analysis', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 237 - 244, http://dx.doi.org/10.1007/978-3-030-00934-2_27
2018
Wu Y; Xia Y; Song Y; Zhang Y; Cai W, 2018, 'Multiscale network followed network model for retinal vessel segmentation', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 119 - 126, http://dx.doi.org/10.1007/978-3-030-00934-2_14
2018
Zhang D; Song Y; Liu S; Feng D; Wang Y; Cai W, 2018, 'Nuclei instance segmentation with dual contour-enhanced adversarial network', in Proceedings - International Symposium on Biomedical Imaging, pp. 409 - 412, http://dx.doi.org/10.1109/ISBI.2018.8363604
2018
Tareef A; Song Y; Feng D; Chen M; Cai W, 2017, 'Automated multi-stage segmentation of white blood cells via optimizing color processing', in Proceedings - International Symposium on Biomedical Imaging, pp. 565 - 568, http://dx.doi.org/10.1109/ISBI.2017.7950584
2017
Song Y; Chang H; Huang H; Cai W, 2017, 'Supervised intra-embedding of fisher vectors for histopathology image classification', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 99 - 106, http://dx.doi.org/10.1007/978-3-319-66179-7_12
2017
Tang Z; Zhang D; Liu S; Song Y; Peng H; Cai W, 2017, 'Automatic 3D Single Neuron Reconstruction with Exhaustive Tracing', in Proceedings - 2017 IEEE International Conference on Computer Vision Workshops, ICCVW 2017, pp. 126 - 133, http://dx.doi.org/10.1109/ICCVW.2017.23
2017
Liu S; Zhang D; Song Y; Peng H; Cai W, 2017, 'Triple-crossing 2.5D convolutional neural network for detecting neuronal arbours in 3D microscopic images', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 185 - 193, http://dx.doi.org/10.1007/978-3-319-67389-9_22
2017
Song Y; Zhang F; Li Q; Huang H; Odonnell LJ; Cai W, 2017, 'Locally-Transferred Fisher Vectors for Texture Classification', in Proceedings of the IEEE International Conference on Computer Vision, pp. 4922 - 4930, http://dx.doi.org/10.1109/ICCV.2017.526
2017
Song Y; Zou JJ; Chang H; Cai W, 2017, 'Adapting fisher vectors for histopathology image classification', in Proceedings - International Symposium on Biomedical Imaging, pp. 600 - 603, http://dx.doi.org/10.1109/ISBI.2017.7950592
2017
Zhang F; Kahali P; Suter Y; Norton I; Rigolo L; Savadjiev P; Song Y; Rathi Y; Cai W; Wells WM; Golby AJ; O'Donnell LJ, 2017, 'Automated connectivity-based groupwise cortical atlas generation: Application to data of neurosurgical patients with brain tumors for cortical parcellation prediction', in Proceedings - International Symposium on Biomedical Imaging, pp. 774 - 777, http://dx.doi.org/10.1109/ISBI.2017.7950633
2017
Zhang F; Wu W; Ning L; McAnulty G; Waber D; Gagoski B; Sarill K; Hamoda HM; Song Y; Cai W; Rathi Y; O’Donnell LJ, 2017, 'Supra-threshold fiber cluster statistics for data-driven whole brain tractography analysis', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 556 - 565, http://dx.doi.org/10.1007/978-3-319-66182-7_64
2017
Zhang F; Norton I; Cai W; Song Y; Wells WM; O'Donnell LJ, 2017, 'Comparison between two white matter segmentation strategies: An investigation into white matter segmentation consistency', in Proceedings - International Symposium on Biomedical Imaging, pp. 796 - 799, http://dx.doi.org/10.1109/ISBI.2017.7950638
2017
Song Y; Cat W; Zhang F; Huang H; Dagan Feng D; Wang Y; Chen M, 2016, 'Texture analysis of tissue aging using global and cluster constrained local coding', in Proceedings - International Symposium on Biomedical Imaging, pp. 1229 - 1232, http://dx.doi.org/10.1109/ISBI.2016.7493488
2016
Song Y; Li Q; Huang H; Feng D; Chen M; Cai W, 2016, 'Histopathology image categorization with discriminative dimension reduction of fisher vectors', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 306 - 317, http://dx.doi.org/10.1007/978-3-319-46604-0_22
2016
Zhang F; Savadjiev P; Cai W; Song Y; Verma R; Westin CF; O'Donnell LJ, 2016, 'Fiber clustering based white matter connectivity analysis for prediction of Autism Spectrum Disorder using diffusion tensor imaging', in Proceedings - International Symposium on Biomedical Imaging, pp. 564 - 567, http://dx.doi.org/10.1109/ISBI.2016.7493331
2016
Liu S; Song Y; Zhang F; Feng D; Fulham M; Cai W, 2016, 'Clique identification and propagation for multimodal brain Tumor image segmentation', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 285 - 294, http://dx.doi.org/10.1007/978-3-319-47103-7_28
2016
Tareef A; Song Y; Cai W; Wang Y; Feng DD; Chen M, 2016, 'Automatic nuclei and cytoplasm segmentation of leukocytes with color and texture-based image enhancement', in Proceedings - International Symposium on Biomedical Imaging, pp. 935 - 938, http://dx.doi.org/10.1109/ISBI.2016.7493418
2016
Song Y; Cai W; Zhang F; Huang H; Zhou Y; Dagan Feng D, 2015, 'Bone texture characterization with fisher encoding of local descriptors', in Proceedings - International Symposium on Biomedical Imaging, pp. 5 - 8, http://dx.doi.org/10.1109/ISBI.2015.7163803
2015
Zhang F; Song Y; Cai W; Hauptmann AG; Liu S; Liu S; Feng DD; Chen M, 2015, 'Ranking-based vocabulary pruning in bag-of-features for image retrieval', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 436 - 445, http://dx.doi.org/10.1007/978-3-319-14803-8_34
2015
Zhang F; Cai W; Song Y; Young P; Traini D; Morgan L; Ong HX; Buddle L; Feng D, 2015, 'Beating cilia identification in fluorescence microscope images for accurate CBF measurement', in Proceedings - International Conference on Image Processing, ICIP, pp. 4496 - 4500, http://dx.doi.org/10.1109/ICIP.2015.7351657
2015
Zhang F; Song Y; Liu S; Young P; Traini D; Morgan L; Ong HX; Buddle L; Liu S; Feng D; Cai W, 2015, 'Motion representation of ciliated cell images with contour-alignment for automated CBF estimation', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 300 - 307, http://dx.doi.org/10.1007/978-3-319-24574-4_36
2015
Tareef A; Song Y; Lee MZ; Feng DD; Chen M; Cai W, 2015, 'Morphological Filtering and Hierarchical Deformation for Partially Overlapping Cell Segmentation', in 2015 International Conference on Digital Image Computing: Techniques and Applications, DICTA 2015, http://dx.doi.org/10.1109/DICTA.2015.7371285
2015
Song Y; Cai W; Li Q; Zhang F; Feng DD; Huang H, 2015, 'Fusing subcategory probabilities for texture classification', in Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition, pp. 4409 - 4417, http://dx.doi.org/10.1109/CVPR.2015.7299070
2015
Tareef A; Song Y; Cai W; Huang H; Wang Y; Feng D; Chen M, 2015, 'Learning shape-driven segmentation based on neural network and sparse reconstruction toward automated cell analysis of cervical smears', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 390 - 400, http://dx.doi.org/10.1007/978-3-319-26532-2_43
2015
Zhang F; Song Y; Liu S; Pujol S; Kikinis R; Feng D; Cai W, 2015, 'Latent semantic association for medical image retrieval', in 2014 International Conference on Digital Image Computing: Techniques and Applications, DICTA 2014, http://dx.doi.org/10.1109/DICTA.2014.7008114
2015
Zhang F; Song Y; Cai W; Depeursinge A; Müller H, 2015, 'USYD/HES-SO in the VISCERAL retrieval benchmark', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 139 - 143, http://dx.doi.org/10.1007/978-3-319-24471-6_13
2015
Cai W; Liu S; Song Y; Pujol S; Kikinis R; Feng D, 2014, 'A 3D difference-of-Gaussian-based lesion detector for brain PET', in 2014 IEEE 11th International Symposium on Biomedical Imaging (ISBI), IEEE, presented at 2014 IEEE 11th International Symposium on Biomedical Imaging (ISBI 2014), 29 April 2014 - 02 May 2014, http://dx.doi.org/10.1109/isbi.2014.6867961
2014
Song Y; Cai W; Huang H; Zhou Y; Feng DD; Chen M, 2014, 'Large margin aggregation of local estimates for medical image classification', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 196 - 203, http://dx.doi.org/10.1007/978-3-319-10470-6_25
2014
Cai W; Zhang F; Song Y; Liu S; Wen L; Eberl S; Fulham M; Feng D, 2014, 'Automated feedback extraction for medical imaging retrieval', in 2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014, pp. 907 - 910, http://dx.doi.org/10.1109/isbi.2014.6868018
2014
Zhang F; Cai W; Song Y; Young P; Traini D; Morgan L; Ong HX; Buddle L; Feng D, 2014, 'Image-based ciliary beating frequency estimation for therapeutic assessment on defective mucociliary clearance diseases', in 2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014, pp. 193 - 196, http://dx.doi.org/10.1109/isbi.2014.6867842
2014
Tareef A; Song Y; Cai W; Feng DD; Chen M, 2014, 'Automated three-stage nucleus and cytoplasm segmentation of overlapping cells', in 2014 13th International Conference on Control Automation Robotics and Vision, ICARCV 2014, pp. 865 - 870, http://dx.doi.org/10.1109/ICARCV.2014.7064418
2014
Song Y; Cai W; Huang H; Zhou Y; Wang Y; Dagan Feng D, 2014, 'Boosted multifold sparse representation with application to ILD classification', in 2014 IEEE 11th International Symposium on Biomedical Imaging (ISBI), IEEE, presented at 2014 IEEE 11th International Symposium on Biomedical Imaging (ISBI 2014), 29 April 2014 - 02 May 2014, http://dx.doi.org/10.1109/isbi.2014.6868047
2014
Zhang F; Song Y; Cai W; Zhou Y; Fulham M; Eberl S; Shan S; Feng D, 2014, 'A ranking-based lung nodule image classification method using unlabeled image knowledge', in 2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014, pp. 1356 - 1359, http://dx.doi.org/10.1109/isbi.2014.6868129
2014
Ng G; Song Y; Cai W; Zhou Y; Liu S; Dagan Feng D, 2014, 'Hierarchical and binary spatial descriptors for lung nodule image retrieval', in 2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2014, pp. 6463 - 6466, http://dx.doi.org/10.1109/EMBC.2014.6945108
2014
Song Y; Cai W; Huh S; Chen M; Kanade T; Zhou Y; Feng D, 2013, 'Discriminative data transform for image feature extraction and classification', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 452 - 459, http://dx.doi.org/10.1007/978-3-642-40763-5_56
2013
2013, 'Similarity guided feature labeling for lesion detection.', in Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention, pp. 284 - 291
2013
Liu S; Song Y; Cai W; Pujol S; Kikinis R; Wang X; Feng D, 2013, 'Multifold Bayesian kernelization in Alzheimer's diagnosis.', in Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention, pp. 303 - 310
2013
Song Y; Cai W; Huh S; Chen M; Kanade T; Zhou Y; Feng D, 2013, 'Discriminative data transform for image feature extraction and classification', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 452 - 459, http://dx.doi.org/10.1007/978-3-642-40763-5_56
2013
Liu S; Song Y; Cai W; Pujol S; Kikinis R; Wang X; Feng D, 2013, 'Multifold Bayesian kernelization in Alzheimer's diagnosis', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 303 - 310, http://dx.doi.org/10.1007/978-3-642-40763-5_38
2013
Lee MZ; Cai W; Song Y; Selvadurai H; Feng DD, 2013, 'Fully automated scoring of chest radiographs in cystic fibrosis', in Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS, pp. 3965 - 3968, http://dx.doi.org/10.1109/EMBC.2013.6610413
2013
Zhang F; Cai W; Song Y; Lee MZ; Shan S; Dagan D, 2013, 'Overlapping node discovery for improving classification of lung nodules', in Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS, pp. 5461 - 5464, http://dx.doi.org/10.1109/EMBC.2013.6610785
2013
Zhang F; Song Y; Cai W; Zhou Y; Shan S; Feng D, 2013, 'Context curves for classification of lung nodule images', in 2013 International Conference on Digital Image Computing: Techniques and Applications, DICTA 2013, http://dx.doi.org/10.1109/DICTA.2013.6691494
2013
Song Y; Cai W; Feng DD; Chen M, 2013, 'Cell nuclei segmentation in fluorescence microscopy images using inter- and intra-region discriminative information', in Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS, pp. 6087 - 6090, http://dx.doi.org/10.1109/EMBC.2013.6610941
2013
Song Y; Cai W; Zhou Y; Wen L; Feng DD, 2013, 'Pathology-centric medical image retrieval with hierarchical contextual spatial descriptor', in Proceedings - International Symposium on Biomedical Imaging, pp. 198 - 201, http://dx.doi.org/10.1109/ISBI.2013.6556446
2013
Zhang L; Liu S; Wang Z; Cai W; Song Y; Feng DD, 2013, 'Graph cuts based relevance feedback in image retrieval', in 2013 IEEE International Conference on Image Processing, ICIP 2013 - Proceedings, pp. 4358 - 4362, http://dx.doi.org/10.1109/ICIP.2013.6738898
2013
Lu S; Wang Z; Song Y; Mei T; Feng DD, 2013, 'A bag-of-importance model for video summarization', in Electronic Proceedings of the 2013 IEEE International Conference on Multimedia and Expo Workshops, ICMEW 2013, http://dx.doi.org/10.1109/ICMEW.2013.6618454
2013
Liu S; Zhang L; Cai W; Song Y; Wang Z; Wen L; Feng DD, 2013, 'A supervised multiview spectral embedding method for neuroimaging classification', in 2013 IEEE International Conference on Image Processing, ICIP 2013 - Proceedings, pp. 601 - 605, http://dx.doi.org/10.1109/ICIP.2013.6738124
2013
Song Y; Cai W; Huang H; Wang X; Eberl S; Fulham M; Feng D, 2013, 'Similarity guided feature labeling for lesion detection', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 284 - 291, http://dx.doi.org/10.1007/978-3-642-40811-3_36
2013
Liu S; Cai W; Song Y; Pujol S; Kikinis R; Wen L; Feng DD, 2013, 'Localized Sparse Code Gradient in Alzheimer's disease staging', in Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS, pp. 5398 - 5401, http://dx.doi.org/10.1109/EMBC.2013.6610769
2013
Song Y; Cai W; Huang H; Wang Y; Feng DD, 2013, 'Context enhanced graphical model for object localization in medical images', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 194 - 205, http://dx.doi.org/10.1007/978-3-642-36620-8_19
2013
Song Y; Cai W; Feng DD, 2012, 'Global context inference for adaptive abnormality detection in PET-CT images', in Proceedings - International Symposium on Biomedical Imaging, pp. 482 - 485, http://dx.doi.org/10.1109/ISBI.2012.6235589
2012
Song Y; Cai W; Zhou Y; Feng D, 2012, 'Thoracic abnormality detection with data adaptive structure estimation', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 74 - 81, http://dx.doi.org/10.1007/978-3-642-33415-3_10
2012
Song Y; Cai W; Huang H; Wang Y; Feng DD, 2012, 'Object localization in medical images based on graphical model with contrast and interest-region terms', in IEEE Computer Society Conference on Computer Vision and Pattern Recognition Workshops, pp. 1 - 7, http://dx.doi.org/10.1109/CVPRW.2012.6239240
2012
Song Y; Cai W; Wang Y; Feng DD, 2012, 'Location classification of lung nodules with optimized graph construction', in Proceedings - International Symposium on Biomedical Imaging, pp. 1439 - 1442, http://dx.doi.org/10.1109/ISBI.2012.6235841
2012
Cai W; Song Y; Feng DD, 2012, 'Regression and classification based distance metric learning for medical image retrieval', in Proceedings - International Symposium on Biomedical Imaging, pp. 1775 - 1778, http://dx.doi.org/10.1109/ISBI.2012.6235925
2012
Song Y; Cai W; Feng DD, 2012, 'Microscopic image segmentation with two-level enhancement of feature discriminability', in 2012 International Conference on Digital Image Computing Techniques and Applications, DICTA 2012, http://dx.doi.org/10.1109/DICTA.2012.6411682
2012
Song Y; Cai W; Eberl S; Fulham MJ; Feng D, 2011, 'Discriminative pathological context detection in thoracic images based on multi-level inference', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 191 - 198, http://dx.doi.org/10.1007/978-3-642-23626-6_24
2011
Song Y; Cai W; Eberl S; Fulham MJ; Feng DD, 2011, 'Thoracic image matching with appearance and spatial distribution', in Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS, pp. 4469 - 4472, http://dx.doi.org/10.1109/IEMBS.2011.6091108
2011
Song Y; Cai W; Eberl S; Fulham MJ; Feng D, 2011, 'Thoracic image case retrieval with spatial and contextual information', in Proceedings - International Symposium on Biomedical Imaging, pp. 1885 - 1888, http://dx.doi.org/10.1109/ISBI.2011.5872776
2011
Song Y; Cai W; Eberl S; Fulham MJ; Feng D, 2011, 'Region and learning based retrieval for multi-modality medical images', in Proceedings of the 8th IASTED International Conference on Biomedical Engineering, Biomed 2011, pp. 343 - 350, http://dx.doi.org/10.2316/P.2011.723-063
2011
Song Y; Cai W; Eberl S; Fulham MJ; Feng DD, 2011, 'Thoracic image matching with appearance and spatial distribution.', in Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Conference, pp. 4469 - 4472, http://dx.doi.org/10.1109/IEMBS.2011.6091108
2011
Song Y; Cai W; Feng DD, 2011, 'Hierarchical spatial matching for medical image retrieval', in MM'11 - Proceedings of the 2011 ACM Multimedia Conference and Co-Located Workshops - 2011 ACM International Workshop on Medical Multimedia Analysis and Retrieval, MMAR'11, pp. 1 - 6, http://dx.doi.org/10.1145/2072545.2072547
2011
Song Y; Cai W; Eberl S; Fulham MJ; Feng D, 2011, 'Discriminative pathological context detection in thoracic images based on multi-level inference', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 191 - 198, http://dx.doi.org/10.1007/978-3-642-23626-6_24
2011
Song Y; Cai W; Eberl S; Fulham MJ; Feng D, 2010, 'Structure-adaptive feature extraction and representation for multi-modality lung images retrieval', in Proceedings - 2010 Digital Image Computing: Techniques and Applications, DICTA 2010, pp. 152 - 157, http://dx.doi.org/10.1109/DICTA.2010.37
2010
Song Y; Cai W; Eberl S; Fulham MJ; Feng D, 2010, 'A content-based image retrieval framework for multi-modality lung images', in Proceedings - IEEE Symposium on Computer-Based Medical Systems, pp. 285 - 290, http://dx.doi.org/10.1109/CBMS.2010.6042657
2010
Journal articles
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Liu D; Zhang D; Song Y; Zhang F; O'Donnell L; Huang H; Chen M; Cai W, 2021, 'PDAM: A Panoptic-Level Feature Alignment Framework for Unsupervised Domain Adaptive Instance Segmentation in Microscopy Images', IEEE Transactions on Medical Imaging, vol. 40, pp. 154 - 165, http://dx.doi.org/10.1109/TMI.2020.3023466
2021
Liu D; Zhang D; Song Y; Huang H; Cai W, 2021, 'Panoptic Feature Fusion Net: A Novel Instance Segmentation Paradigm for Biomedical and Biological Images', IEEE Transactions on Image Processing, vol. 30, pp. 2045 - 2059, http://dx.doi.org/10.1109/TIP.2021.3050668
2021
Rana P; Sowmya A; Meijering E; Song Y, 2021, 'Estimation of three-dimensional chromatin morphology for nuclear classification and characterisation', Scientific Reports, vol. 11, http://dx.doi.org/10.1038/s41598-021-82985-9
2021
Zheng Y; Meng F; Liu J; Guo B; Song Y; Zhang X; Wang L, 2020, 'Fourier Transform to Group Feature on Generated Coarser Contours for Fast 2D Shape Matching', IEEE Access, vol. 8, pp. 90141 - 90152, http://dx.doi.org/10.1109/ACCESS.2020.2994234
2020
Jia H; Xia Y; Song Y; Zhang D; Huang H; Zhang Y; Cai W, 2020, '3D APA-Net: 3D Adversarial Pyramid Anisotropic Convolutional Network for Prostate Segmentation in MR Images', IEEE Transactions on Medical Imaging, vol. 39, pp. 447 - 457, http://dx.doi.org/10.1109/TMI.2019.2928056
2020
Wu Y; Xia Y; Song Y; Zhang Y; Cai W, 2020, 'NFN＋: A novel network followed network for retinal vessel segmentation', Neural Networks, vol. 126, pp. 153 - 162, http://dx.doi.org/10.1016/j.neunet.2020.02.018
2020
Xie Y; Xia Y; Zhang J; Song Y; Feng D; Fulham M; Cai W, 2019, 'Knowledge-based Collaborative Deep Learning for Benign-Malignant Lung Nodule Classification on Chest CT', IEEE Transactions on Medical Imaging, vol. 38, pp. 991 - 1004, http://dx.doi.org/10.1109/TMI.2018.2876510
2019
Gao C; He X; Gan D; Chen X; Feng F; Li Y; Chua T; Yao L; Song Y; Jin D, 2019, 'Learning to Recommend with Multiple Cascading Behaviors', IEEE Transactions on Knowledge and Data Engineering, pp. 1 - 1, http://dx.doi.org/10.1109/TKDE.2019.2958808
2019
Khanal D; Zhang F; Song Y; Hau H; Gautam A; Yamaguchi S; Uertz J; Mills S; Kondyurin A; Knowles JC; Georgiou G; Ramzan I; Cai W; Ng KW; Chrzanowski W, 2019, 'Biological impact of nanodiamond particles–label free, high-resolution methods for nanotoxicity assessment', Nanotoxicology, vol. 13, pp. 1210 - 1226, http://dx.doi.org/10.1080/17435390.2019.1650970
2019
Zhang F; Savadjiev P; Cai W; Song Y; Rathi Y; Tunç B; Parker D; Kapur T; Schultz RT; Makris N; Verma R; O'Donnell LJ, 2018, 'Whole brain white matter connectivity analysis using machine learning: An application to autism', NeuroImage, vol. 172, pp. 826 - 837, http://dx.doi.org/10.1016/j.neuroimage.2017.10.029
2018
Zhang F; Wu W; Ning L; McAnulty G; Waber D; Gagoski B; Sarill K; Hamoda HM; Song Y; Cai W; Rathi Y; O'Donnell LJ, 2018, 'Suprathreshold fiber cluster statistics: Leveraging white matter geometry to enhance tractography statistical analysis', NeuroImage, vol. 171, pp. 341 - 354, http://dx.doi.org/10.1016/j.neuroimage.2018.01.006
2018
Jia H; Xia Y; Song Y; Cai W; Fulham M; Feng DD, 2018, 'Atlas registration and ensemble deep convolutional neural network-based prostate segmentation using magnetic resonance imaging', Neurocomputing, vol. 275, pp. 1358 - 1369, http://dx.doi.org/10.1016/j.neucom.2017.09.084
2018
Liu S; Zhang D; Song Y; Peng H; Cai W, 2018, 'Automated 3-D Neuron Tracing with Precise Branch Erasing and Confidence Controlled Back Tracking', IEEE Transactions on Medical Imaging, vol. 37, pp. 2441 - 2452, http://dx.doi.org/10.1109/TMI.2018.2833420
2018
Meng F; Shan D; Shi R; Song Y; Guo B; Cai W, 2018, 'Merged region based image retrieval', Journal of Visual Communication and Image Representation, vol. 55, pp. 572 - 585, http://dx.doi.org/10.1016/j.jvcir.2018.07.003
2018
Pan Y; Xia Y; Song Y; Cai W, 2018, 'Locality constrained encoding of frequency and spatial information for image classification', Multimedia Tools and Applications, vol. 77, pp. 24891 - 24907, http://dx.doi.org/10.1007/s11042-018-5712-3
2018
Zhang D; Liu S; Song Y; Feng D; Peng H; Cai W, 2018, 'Automated 3D Soma Segmentation with Morphological Surface Evolution for Neuron Reconstruction', Neuroinformatics, vol. 16, pp. 153 - 166, http://dx.doi.org/10.1007/s12021-017-9353-x
2018
Tareef A; Song Y; Huang H; Feng D; Chen M; Wang Y; Cai W, 2018, 'Multi-Pass Fast Watershed for Accurate Segmentation of Overlapping Cervical Cells', IEEE Transactions on Medical Imaging, vol. 37, pp. 2044 - 2059, http://dx.doi.org/10.1109/TMI.2018.2815013
2018
Song Y; Li Q; Huang H; Feng D; Chen M; Cai W, 2017, 'Low Dimensional Representation of Fisher Vectors for Microscopy Image Classification', IEEE Transactions on Medical Imaging, vol. 36, pp. 1636 - 1649, http://dx.doi.org/10.1109/TMI.2017.2687466
2017
Tareef A; Song Y; Cai W; Huang H; Chang H; Wang Y; Fulham M; Feng D; Chen M, 2017, 'Automatic segmentation of overlapping cervical smear cells based on local distinctive features and guided shape deformation', Neurocomputing, vol. 221, pp. 94 - 107, http://dx.doi.org/10.1016/j.neucom.2016.09.070
2017
Tareef A; Song Y; Huang H; Wang Y; Feng D; Chen M; Cai W, 2017, 'Optimizing the cervix cytological examination based on deep learning and dynamic shape modeling', Neurocomputing, vol. 248, pp. 28 - 40, http://dx.doi.org/10.1016/j.neucom.2017.01.093
2017
Song Y; Li Q; Zhang F; Huang H; Feng D; Wang Y; Chen M; Cai W, 2017, 'Dual discriminative local coding for tissue aging analysis', Medical Image Analysis, vol. 38, pp. 65 - 76, http://dx.doi.org/10.1016/j.media.2016.10.001
2017
Meng F; Shi R; Shan D; Song Y; He W; Cai W, 2017, 'Multi-sensor image fusion based on regional characteristics', International Journal of Distributed Sensor Networks, vol. 13, http://dx.doi.org/10.1177/1550147717741105
2017
Song Y; Cai W; Huang H; Feng D; Wang Y; Chen M, 2016, 'Bioimage classification with subcategory discriminant transform of high dimensional visual descriptors', BMC Bioinformatics, vol. 17, http://dx.doi.org/10.1186/s12859-016-1318-9
2016
Yang MY; Verschuer J; Shi Y; Song Y; Katsifis A; Eberl S; Wong K; Brannan JD; Cai W; Finlay WH; Chan HK, 2016, 'The effect of device resistance and inhalation flow rate on the lung deposition of orally inhaled mannitol dry powder', International Journal of Pharmaceutics, vol. 513, pp. 294 - 301, http://dx.doi.org/10.1016/j.ijpharm.2016.09.047
2016
Zhang F; Song Y; Cai W; Liu S; Liu S; Pujol S; Kikinis R; Xia Y; Fulham MJ; Feng DD, 2016, 'Pairwise Latent Semantic Association for Similarity Computation in Medical Imaging', IEEE Transactions on Biomedical Engineering, vol. 63, pp. 1058 - 1069, http://dx.doi.org/10.1109/TBME.2015.2478028
2016
Song Y; Li Q; Feng D; Zou JJ; Cai W, 2016, 'Texture image classification with discriminative neural networks', Computational Visual Media, vol. 2, pp. 367 - 377, http://dx.doi.org/10.1007/s41095-016-0060-6
2016
Zhang F; Song Y; Cai W; Hauptmann AG; Liu S; Pujol S; Kikinis R; Fulham MJ; Feng DD; Chen M, 2016, 'Dictionary pruning with visual word significance for medical image retrieval', Neurocomputing, vol. 177, pp. 75 - 88, http://dx.doi.org/10.1016/j.neucom.2015.11.008
2016
Song Y; Cai W; Huang H; Zhou Y; Wang Y; Feng DD, 2015, 'Locality-constrained Subcluster Representation Ensemble for lung image classification', Medical Image Analysis, vol. 22, pp. 102 - 113, http://dx.doi.org/10.1016/j.media.2015.03.003
2015
Song Y; Cai W; Huang H; Zhou Y; Feng DD; Wang Y; Fulham MJ; Chen M, 2015, 'Large margin local estimate with applications to medical image classification', IEEE Transactions on Medical Imaging, vol. 34, pp. 1362 - 1377, http://dx.doi.org/10.1109/TMI.2015.2393954
2015
Song Y; Cail W; Huang H; Zhou Y; Feng DDA; Chen M, 2014, 'Large margin aggregation of local estimates for medical image classification', Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention, vol. 17, pp. 196 - 203
2014
Zhang F; Song Y; Cai W; Lee MZ; Zhou Y; Huang H; Shan S; Fulham MJ; Feng DD, 2014, 'Lung nodule classification with multilevel patch-based context analysis', IEEE Transactions on Biomedical Engineering, vol. 61, pp. 1155 - 1166, http://dx.doi.org/10.1109/TBME.2013.2295593
2014
Song Y; Cai W; Huang H; Wang X; Zhou Y; Fulham MJ; Feng DD, 2014, 'Lesion detection and characterization with context driven approximation in thoracic FDG PET-CT images of NSCLC studies', IEEE Transactions on Medical Imaging, vol. 33, pp. 408 - 421, http://dx.doi.org/10.1109/TMI.2013.2285931
2014
Song Y; Cai W; Huang H; Wang Y; Feng DD; Chen M, 2013, 'Region-based progressive localization of cell nuclei in microscopic images with data adaptive modeling', BMC Bioinformatics, vol. 14, http://dx.doi.org/10.1186/1471-2105-14-173
2013
Song Y; Cai W; Zhou Y; Feng DD, 2013, 'Feature-based image patch approximation for lung tissue classification', IEEE Transactions on Medical Imaging, vol. 32, pp. 797 - 808, http://dx.doi.org/10.1109/TMI.2013.2241448
2013
Song Y; Cai W; Kim J; Feng DD, 2012, 'A multistage discriminative model for tumor and lymph node detection in thoracic images', IEEE Transactions on Medical Imaging, vol. 31, pp. 1061 - 1075, http://dx.doi.org/10.1109/TMI.2012.2185057
2012
Book Chapters
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Song Y; Cai W, 2017, 'Chapter 6 Handling of Feature Space Complexity for Texture Analysis in Medical Images', in Biomedical Texture Analysis, pp. 163 - 191, http://dx.doi.org/10.1016/b978-0-12-812133-7.00006-5
2017
Zhang F; Song Y; Cai W; Depeursinge A; Müller H, 2017, 'Text- and Content-Based Medical Image Retrieval in the VISCERAL Retrieval Benchmark', in Cloud-Based Benchmarking of Medical Image Analysis, Springer International Publishing, pp. 237 - 249, http://dx.doi.org/10.1007/978-3-319-49644-3_14
2017
Song Y; Cai W, 2017, 'Handling of feature space complexity for texture analysis in medical images', in Biomedical Texture Analysis: Fundamentals, Tools and Challenges, pp. 163 - 191, http://dx.doi.org/10.1016/B978-0-12-812133-7.00006-5
2017
Song Y; Cai W; Eberl S; Fulham MJ; Feng DD, 2014, 'FEATURE-CENTRIC LESION DETECTION AND RETRIEVAL IN THORACIC IMAGES', in Computer Vision in Medical Imaging, WORLD SCIENTIFIC, pp. 75 - 94, http://dx.doi.org/10.1142/9789814460941_0005
2014

Awards
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Selected awards: 

  • 2020      Scientia Fellowship, UNSW
  • 2019      ARC Future Fellowship
  • 2017      Dean’s Research Award, University of Sydney
  • 2015      ARC Discovery Early Career Researcher Award (DECRA)
  • 2013      Google Publication Prize

Teaching
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  • COMP9517 - Computer Vision 
  • COMP9417 - Machine Learning and Data Mining
  • COMP9491 - Applied Artificial Intelligence
  • Vertically Integrated Project - Social AI 
  • Supervision of Honours thesis studies and Master's research project studies 
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