Publications

Preprints

  • Hongyang Gao, Hao Yuan, Zhengyang Wang, and Shuiwang Ji
    Pixel Deconvolutional Networks
    [paper] [code]

  • Jun Li, Yongjun Chen, Lei Cai, Ian Davidson, and Shuiwang Ji
    Dense Transformer Networks
    [paper] [code]

  • Zhengyang Wang, Hao Yuan, and Shuiwang Ji
    Spatial Variational Auto-Encoding via Matrix-Variate Normal Distributions
    [paper] [code]

  • Lei Cai, Hongyang Gao, and Shuiwang Ji
    Multi-Stage Variational Auto-Encoders for Coarse-to-Fine Image Generation
    [paper]

  • Zhengyang Wang and Shuiwang Ji
    Learning Convolutional Text Representations for Visual Question Answering
    [paper] [code]

Accepted Manuscripts

2017

  • Tao Zeng, Bian Wu, Jiayu Zhou, Ian Davidson and Shuiwang Ji
    Recurrent Encoder-Decoder Networks for Time-Varying Dense Prediction
    The IEEE International Conference on Data Mining (ICDM), 2017

  • Hongyang Gao and Shuiwang Ji
    Efficient and Invariant Convolutional Neural Networks for Dense Prediction
    The IEEE International Conference on Data Mining (ICDM), 2017

  • Debrup Banerjee, Kazi Islam, Gang Mei, Lemin Xiao, Roger Xu, Shuiwang Ji, and Jiang Li
    A Deep Transfer Learning Approach for Post Traumatic Stress Disorder Diagnosis
    The IEEE International Conference on Data Mining (ICDM), 2017

  • Qi Wang, Mengying Sun, Liang Zhan, Paul Thompson, Shuiwang Ji, and Jiayu Zhou
    Multi-Modality Disease Modeling via Collective Deep Matrix Factorization
    The 23rd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD), 1155-1164, 2017

  • Tao Zeng, Bian Wu, and Shuiwang Ji
    DeepEM3D: Approaching human-level performance on 3D anisotropic EM image segmentation
    Bioinformatics, 33(16): 2555-2562, 2017 (Impact factor: 7.307)

  • Rongjian Li, Tao Zeng, Hanchuan Peng, and Shuiwang Ji
    Deep Learning Segmentation of Optical Microscopy Images Improves 3D Neuron Reconstruction
    IEEE Transactions on Medical Imaging, 36(7):1533-1541, 2017

2016

  • Ahmed Fakhry, Hanchuan Peng, and Shuiwang Ji
    Deep models for brain EM image segmentation: novel insights and improved performance
    Bioinformatics, 32: 2352-2358, 2016 (5-Yr impact factor: 7.685)

  • Rongjian Li, Dong Si, Tao Zeng, Shuiwang Ji, and Jing He
    Deep Convolutional Neural Networks for Detecting Secondary Structures in Protein Density Maps from Cryo-Electron Microscopy
    IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 41-46, 2016

  • Qingyang Li, Shuang Qiu, Shuiwang Ji, Paul Thompson, Jieping Ye, and Jie Wang
    Parallel Lasso Screening for Big Data Optimization
    The 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD), 1705-1714, 2016

  • Kaixiang Lin, Jianpeng Xu, Inci Baytas, Shuiwang Ji, and Jiayu Zhou
    Multi-Task Feature Interaction Learning
    The 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD), 1735-1744, 2016

  • Lei Zhang, Shupeng Wang, Xiaoyu Zhang, Yong Wang, Binbin Li, Dinggang Shen, and Shuiwang Ji
    Collaborative Multi-View Denoising
    The 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD), 2045-2054, 2016

2015

  • Tao Zeng and Shuiwang Ji
    Deep Convolutional Neural Networks for Multi-Instance Multi-Task Learning
    The IEEE International Conference on Data Mining (ICDM), 579-588, 2015

  • Wenlu Zhang, Rongjian Li, Tao Zeng, Qian Sun, Sudhir Kumar, Jieping Ye, and Shuiwang Ji
    Deep Model Based Transfer and Multi-Task Learning for Biological Image Analysis
    The 21st ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD), 1475-1484, 2015

  • Sen Yang, Qian Sun, Shuiwang Ji, Peter Wonka, Ian Davidson, Jieping Ye
    Structural Graphical Lasso for Learning Mouse Brain Connectivity
    The 21st ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD), 1385-1394, 2015

  • Rongjian Li, Wenlu Zhang, Yao Zhao, Zhenfeng Zhu, and Shuiwang Ji
    Sparsity Learning Formulations for Mining Time-Varying Data
    IEEE Transactions on Knowledge and Data Engineering, 27(5): 1411-1423, 2015

  • Tao Yang, Xinlin Zhao, Binbin Lin, Tao Zeng, Shuiwang Ji, and Jieping Ye
    Automated Gene Expression Pattern Annotation in the Mouse Brain
    The 20th Pacific Symposium on Biocomputing (PSB), 144-155, 2015

2014

  • Rongjian Li, Wenlu Zhang, Heung-Il Suk, Li Wang, Jiang Li, Dinggang Shen, and Shuiwang Ji
    Deep Learning Based Imaging Data Completion for Improved Brain Disease Diagnosis
    The Seventeenth International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), 305-312, 2014

  • Feng Li, Loc Tran, Kim-Ham Thung, Shuiwang Ji, Dinggang Shen, and Jiang Li
    Robust Deep Learning for Improved Classification of AD/MCI Patients
    The Fifth MICCAI Workshop on Machine Learning in Medical Imaging (MLMI), 2014

2013

2012

2011

2010

2009

2008

  • Shuiwang Ji, Liang Sun, Rong Jin and Jieping Ye
    Multi-Label Multiple Kernel Learning
    The Twenty-Second Annual Conference on Neural Information Processing Systems (NIPS 2008), 777-784, 2008

  • Jianhui Chen, Shuiwang Ji, Betul Ceran, Qi Li, Mingrui Wu and Jieping Ye
    Learning Subspace Kernels for Classification
    The Fourteenth ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD 2008), 106-114, 2008

2007