Select Publications

Book Chapters

Fan L; Ding Y; Fan D; Wu Y; Pagnucco M; Song Y, 2023, 'Identifying the Defective: Detecting Damaged Grains for Cereal Appearance Inspection', in , pp. 660 - 667, http://dx.doi.org/10.3233/FAIA230329

Xu Y; Pagnucco M; Song Y, 2023, 'DHG-GAN: Diverse Image Outpainting via Decoupled High Frequency Semantics', in , pp. 168 - 184, http://dx.doi.org/10.1007/978-3-031-26293-7_11

Zhu J; Bolsterlee B; Chow BVY; Song Y; Meijering E, 2023, 'Uncertainty and Shape-Aware Continual Test-Time Adaptation for Cross-Domain Segmentation of Medical Images', in , pp. 659 - 669, http://dx.doi.org/10.1007/978-3-031-43898-1_63

Wang H; Song Y; Tang Z; Zhang C; Yu J; Liu D; Zhang D; Liu S; Cai W, 2022, 'AI-Enhanced 3D Biomedical Data Analytics for Neuronal Structure Reconstruction', in Humanity Driven AI, Springer International Publishing, pp. 135 - 163, http://dx.doi.org/10.1007/978-3-030-72188-6_7

Wang X; Xiang T; Zhang C; Song Y; Liu D; Huang H; Cai W, 2021, 'BiX-NAS: Searching Efficient Bi-directional Architecture for Medical Image Segmentation', in Medical Image Computing and Computer Assisted Intervention – MICCAI 2021, pp. 229 - 238, http://dx.doi.org/10.1007/978-3-030-87193-2_22

Chen Y; Zhang C; Song Y; Makris N; Rathi Y; Cai W; Zhang F; O’Donnell LJ, 2021, 'Deep Fiber Clustering: Anatomically Informed Unsupervised Deep Learning for Fast and Effective White Matter Parcellation', in Medical Image Computing and Computer Assisted Intervention – MICCAI 2021, pp. 497 - 507, http://dx.doi.org/10.1007/978-3-030-87234-2_47

Hu Y; Meijering E; Xia Y; Song Y, 2021, 'Deformable Convolution and Semi-supervised Learning in Point Clouds for Aneurysm Classification and Segmentation', in Neural Information Processing, pp. 283 - 290, http://dx.doi.org/10.1007/978-3-030-92310-5_33

Guo R; Pagnucco M; Song Y, 2021, 'Learning with Noise: Mask-Guided Attention Model for Weakly Supervised Nuclei Segmentation', in Medical Image Computing and Computer Assisted Intervention – MICCAI 2021, pp. 461 - 470, http://dx.doi.org/10.1007/978-3-030-87196-3_43

Cong C; Liu S; Di Ieva A; Pagnucco M; Berkovsky S; Song Y, 2021, 'Semi-supervised Adversarial Learning for Stain Normalisation in Histopathology Images', in Medical Image Computing and Computer Assisted Intervention – MICCAI 2021, pp. 581 - 591, http://dx.doi.org/10.1007/978-3-030-87237-3_56

Wang H; Zhang C; Yu J; Song Y; Liu S; Chrzanowski W; Cai W, 2021, 'Voxel-Wise Cross-Volume Representation Learning for 3D Neuron Reconstruction', in Machine Learning in Medical Imaging, pp. 248 - 257, http://dx.doi.org/10.1007/978-3-030-87589-3_26

Song Y; Cai W, 2020, 'Visual feature representation in microscopy image classification', in Computer Vision for Microscopy Image Analysis, pp. 73 - 100, http://dx.doi.org/10.1016/B978-0-12-814972-0.00004-7

Cai W; Song Y; Kumar A; Kim J; Feng DD, 2019, 'Content-based large-scale medical image retrieval', in Biomedical Information Technology, pp. 321 - 368, http://dx.doi.org/10.1016/B978-0-12-816034-3.00011-0

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

Song Y; Cai W, 2017, 'Chapter 6 Handling of Feature Space Complexity for Texture Analysis in Medical Images', in Biomedical Texture Analysis, Elsevier, pp. 163 - 191, http://dx.doi.org/10.1016/b978-0-12-812133-7.00006-5

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

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

Journal articles

Cong C; Liu S; Rana P; Pagnucco M; Di Ieva A; Berkovsky S; Song Y, 2024, 'Adaptive unified contrastive learning with graph-based feature aggregator for imbalanced medical image classification', Expert Systems with Applications, 251, http://dx.doi.org/10.1016/j.eswa.2024.123783

Zhu J; Bolsterlee B; Chow BVY; Song Y; Meijering E, 2024, 'Hybrid dual mean-teacher network with double-uncertainty guidance for semi-supervised segmentation of magnetic resonance images', Computerized Medical Imaging and Graphics, 115, http://dx.doi.org/10.1016/j.compmedimag.2024.102383

Chen Y; Zekelman LR; Zhang C; Xue T; Song Y; Makris N; Rathi Y; Golby AJ; Cai W; Zhang F; O'Donnell LJ, 2024, 'TractGeoNet: A geometric deep learning framework for pointwise analysis of tract microstructure to predict language assessment performance', Medical Image Analysis, 94, http://dx.doi.org/10.1016/j.media.2024.103120

Jin Q; Cui H; Sun C; Song Y; Zheng J; Cao L; Wei L; Su R, 2024, 'Inter- and intra-uncertainty based feature aggregation model for semi-supervised histopathology image segmentation', Expert Systems with Applications, 238, http://dx.doi.org/10.1016/j.eswa.2023.122093

Wang J; Jiang Y; Long Y; Sun X; Pagnucco M; Song Y, 2024, 'Deconfounding Causal Inference for Zero-Shot Action Recognition', IEEE Transactions on Multimedia, 26, pp. 3976 - 3986, http://dx.doi.org/10.1109/TMM.2023.3318300

Wang W; Song Y; Jha S, 2024, 'USAT: A Universal Speaker-Adaptive Text-to-Speech Approach', IEEE/ACM Transactions on Audio Speech and Language Processing, http://dx.doi.org/10.1109/TASLP.2024.3393714

Tchetchenian A; Zhu Y; Zhang F; O’Donnell LJ; Song Y; Meijering E, 2023, 'A comparison of manual and automated neural architecture search for white matter tract segmentation', Scientific Reports, 13, http://dx.doi.org/10.1038/s41598-023-28210-1

Fan L; Ding Y; Fan D; Wu Y; Chu H; Pagnucco M; Song Y, 2023, 'An annotated grain kernel image database for visual quality inspection', Scientific Data, 10, http://dx.doi.org/10.1038/s41597-023-02660-8

Fan L; Fan D; Ding Y; Wu Y; Chu H; Pagnucco M; Song Y, 2023, 'AV4GAInsp: An Efficient Dual-Camera System for Identifying Defective Kernels of Cereal Grains', IEEE Robotics and Automation Letters, 9, pp. 851 - 858, http://dx.doi.org/10.1109/LRA.2023.3338517

Jose L; Liu S; Russo C; Cong C; Song Y; Rodriguez M; Di Ieva A, 2023, 'Artificial Intelligence–Assisted Classification of Gliomas Using Whole Slide Images', Archives of Pathology and Laboratory Medicine, 147, pp. 916 - 924, http://dx.doi.org/10.5858/arpa.2021-0518-OA

Xu Y; Pagnucco M; Song Y, 2023, 'An edge guided coarse-to-fine generative network for image outpainting', Neurocomputing, 541, http://dx.doi.org/10.1016/j.neucom.2023.126254

Chen Y; Zhang C; Xue T; Song Y; Makris N; Rathi Y; Cai W; Zhang F; O'Donnell LJ, 2023, 'Deep fiber clustering: Anatomically informed fiber clustering with self-supervised deep learning for fast and effective tractography parcellation', NeuroImage, 273, http://dx.doi.org/10.1016/j.neuroimage.2023.120086

Fan L; Sowmya A; Meijering E; Song Y, 2023, 'Cancer Survival Prediction From Whole Slide Images With Self-Supervised Learning and Slide Consistency', IEEE Transactions on Medical Imaging, 42, pp. 1401 - 1412, http://dx.doi.org/10.1109/TMI.2022.3228275

Guo R; Xie K; Pagnucco M; Song Y, 2023, 'SAC-Net: Learning with weak and noisy labels in histopathology image segmentation', Medical Image Analysis, 86, http://dx.doi.org/10.1016/j.media.2023.102790

Xue T; Zhang F; Zhang C; Chen Y; Song Y; Golby AJ; Makris N; Rathi Y; Cai W; O'Donnell LJ, 2023, 'Superficial white matter analysis: An efficient point-cloud-based deep learning framework with supervised contrastive learning for consistent tractography parcellation across populations and dMRI acquisitions', Medical Image Analysis, 85, http://dx.doi.org/10.1016/j.media.2023.102759

Mandal A; Priyam S; Chan HH; Gouveia BM; Guitera P; Song Y; Baker MAB; Vafaee F, 2023, 'Computer-Aided Diagnosis of Melanoma Subtypes Using Reflectance Confocal Images', Cancers, 15, http://dx.doi.org/10.3390/cancers15051428

Liu D; Zhang C; Song Y; Huang H; Wang C; Barnett M; Cai W, 2023, 'Decompose to Adapt: Cross-Domain Object Detection Via Feature Disentanglement', IEEE Transactions on Multimedia, 25, pp. 1333 - 1344, http://dx.doi.org/10.1109/TMM.2022.3141614

Rana P; Sowmya A; Meijering E; Song Y, 2023, 'Imbalanced classification for protein subcellular localization with multilabel oversampling', Bioinformatics, 39, http://dx.doi.org/10.1093/bioinformatics/btac841

Wang W; Pagnucco M; Xu C; Song Y, 2023, 'InterREC: An Interpretable Method for Referring Expression Comprehension', IEEE Transactions on Multimedia, 25, pp. 9330 - 9342, http://dx.doi.org/10.1109/TMM.2023.3251111

Yang Z; Cong C; Pagnucco M; Song Y, 2023, 'Multi-scale multi-reception attention network for bone age assessment in X-ray images', Neural Networks, 158, pp. 249 - 257, http://dx.doi.org/10.1016/j.neunet.2022.11.002

Rana P; Sowmya A; Meijering E; Song Y, 2022, 'Data augmentation with improved regularisation and sampling for imbalanced blood cell image classification', Scientific Reports, 12, http://dx.doi.org/10.1038/s41598-022-22882-x

Sandarenu P; Millar EKA; Song Y; Browne L; Beretov J; Lynch J; Graham PH; Jonnagaddala J; Hawkins N; Huang J; Meijering E, 2022, 'Survival prediction in triple negative breast cancer using multiple instance learning of histopathological images', Scientific Reports, 12, http://dx.doi.org/10.1038/s41598-022-18647-1

Cong C; Liu S; Di Ieva A; Pagnucco M; Berkovsky S; Song Y, 2022, 'Colour adaptive generative networks for stain normalisation of histopathology images', Medical Image Analysis, 82, http://dx.doi.org/10.1016/j.media.2022.102580

Jiang J; Wang D; Song Y; Sachdev PS; Wen W, 2022, 'Computer-aided extraction of select MRI markers of cerebral small vessel disease: A systematic review', NeuroImage, 261, pp. 119528, http://dx.doi.org/10.1016/j.neuroimage.2022.119528

Xiang T; Song Y; Zhang C; Liu D; Chen M; Zhang F; Huang H; O'Donnell L; Cai W, 2022, 'DSNet: A Dual-Stream Framework for Weakly-Supervised Gigapixel Pathology Image Analysis', IEEE Transactions on Medical Imaging, 41, pp. 2180 - 2190, http://dx.doi.org/10.1109/TMI.2022.3157983

Ma Y; Zhang C; Cabezas M; Song Y; Tang Z; Liu D; Cai W; Barnett M; Wang C, 2022, 'Multiple Sclerosis Lesion Analysis in Brain Magnetic Resonance Images: Techniques and Clinical Applications', IEEE Journal of Biomedical and Health Informatics, 26, pp. 2680 - 2692, http://dx.doi.org/10.1109/JBHI.2022.3151741

Xiang T; Zhang C; Wang X; Song Y; Liu D; Huang H; Cai W, 2022, 'Towards bi-directional skip connections in encoder-decoder architectures and beyond', Medical Image Analysis, 78, http://dx.doi.org/10.1016/j.media.2022.102420

Zhu J; Bolsterlee B; Chow BVY; Cai C; Herbert RD; Song Y; Meijering E, 2021, 'Deep learning methods for automatic segmentation of lower leg muscles and bones from MRI scans of children with and without cerebral palsy', NMR in Biomedicine, 34, http://dx.doi.org/10.1002/nbm.4609

Rana P; Sowmya A; Meijering E; Song Y, 2021, 'Estimation of three-dimensional chromatin morphology for nuclear classification and characterisation', Scientific Reports, 11, http://dx.doi.org/10.1038/s41598-021-82985-9

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, 30, pp. 2045 - 2059, http://dx.doi.org/10.1109/TIP.2021.3050668

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, 40, pp. 154 - 165, http://dx.doi.org/10.1109/TMI.2020.3023466

Wu Y; Xia Y; Song Y; Zhang Y; Cai W, 2020, 'NFN+: A novel network followed network for retinal vessel segmentation', Neural Networks, 126, pp. 153 - 162, http://dx.doi.org/10.1016/j.neunet.2020.02.018

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, 39, pp. 447 - 457, http://dx.doi.org/10.1109/TMI.2019.2928056

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, 8, pp. 90141 - 90152, http://dx.doi.org/10.1109/ACCESS.2020.2994234


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