Select Publications

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, 32, pp. 2590 - 2604, 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

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, 13, pp. 1210 - 1226, http://dx.doi.org/10.1080/17435390.2019.1650970

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, 38, pp. 991 - 1004, http://dx.doi.org/10.1109/TMI.2018.2876510

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

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, 37, pp. 2441 - 2452, http://dx.doi.org/10.1109/TMI.2018.2833420

Pan Y; Xia Y; Song Y; Cai W, 2018, 'Locality constrained encoding of frequency and spatial information for image classification', Multimedia Tools and Applications, 77, pp. 24891 - 24907, http://dx.doi.org/10.1007/s11042-018-5712-3

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, 37, pp. 2044 - 2059, http://dx.doi.org/10.1109/TMI.2018.2815013

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, 55, pp. 572 - 585, http://dx.doi.org/10.1016/j.jvcir.2018.07.003

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, 172, pp. 826 - 837, http://dx.doi.org/10.1016/j.neuroimage.2017.10.029

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, 171, pp. 341 - 354, http://dx.doi.org/10.1016/j.neuroimage.2018.01.006

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, 16, pp. 153 - 166, http://dx.doi.org/10.1007/s12021-017-9353-x

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, 275, pp. 1358 - 1369, http://dx.doi.org/10.1016/j.neucom.2017.09.084

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, 13, http://dx.doi.org/10.1177/1550147717741105

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, 36, pp. 1636 - 1649, http://dx.doi.org/10.1109/TMI.2017.2687466

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, 248, pp. 28 - 40, http://dx.doi.org/10.1016/j.neucom.2017.01.093

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, 38, pp. 65 - 76, http://dx.doi.org/10.1016/j.media.2016.10.001

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, 221, pp. 94 - 107, http://dx.doi.org/10.1016/j.neucom.2016.09.070


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