Shuiwang Ji

Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021

2020

zhengyang-wang/GVTNets: Code for "Global Voxel Transformer Networks for Augmented Microscopy".

[BibT_eX]

[DOI]

Yaochen Xie

Dataset, November, 2020

Global Pixel Transformers for Virtual Staining of Microscopy Images.

[BibT_eX]

[DOI]

IEEE Trans. Medical Imaging, 2020

Deep Model Based Transfer and Multi-Task Learning for Biological Image Analysis.

[BibT_eX]

[DOI]

IEEE Trans. Big Data, 2020

Adversarial Attacks and Defenses on Graphs.

[BibT_eX]

[DOI]

SIGKDD Explor., 2020

Pixel Transposed Convolutional Networks.

[BibT_eX]

[DOI]

IEEE Trans. Pattern Anal. Mach. Intell., 2020

MoleculeKit: Machine Learning Methods for Molecular Property Prediction and Drug Discovery.

[BibT_eX]

[DOI]

CoRR, 2020

Augmented Equivariant Attention Networks for Electron Microscopy Image Super-Resolution.

[BibT_eX]

[DOI]

Yaochen Xie

Yu Ding

CoRR, 2020

iCapsNets: Towards Interpretable Capsule Networks for Text Classification.

[BibT_eX]

[DOI]

Xia Hu

CoRR, 2020

Deep Neural Networks with Knowledge Instillation.

[BibT_eX]

[DOI]

Proceedings of the 2020 SIAM International Conference on Data Mining, 2020

Noise2Same: Optimizing A Self-Supervised Bound for Image Denoising.

[BibT_eX]

[DOI]

Yaochen Xie

Proceedings of the Advances in Neural Information Processing Systems 33: Annual Conference on Neural Information Processing Systems 2020, 2020

XGNN: Towards Model-Level Explanations of Graph Neural Networks.

[BibT_eX]

[DOI]

Proceedings of the KDD '20: The 26th ACM SIGKDD Conference on Knowledge Discovery and Data Mining, 2020

Deep Learning of High-Order Interactions for Protein Interface Prediction.

[BibT_eX]

[DOI]

Proceedings of the KDD '20: The 26th ACM SIGKDD Conference on Knowledge Discovery and Data Mining, 2020

Towards Deeper Graph Neural Networks.

[BibT_eX]

[DOI]

Meng Liu

Proceedings of the KDD '20: The 26th ACM SIGKDD Conference on Knowledge Discovery and Data Mining, 2020

Kronecker Attention Networks.

[BibT_eX]

[DOI]

Proceedings of the KDD '20: The 26th ACM SIGKDD Conference on Knowledge Discovery and Data Mining, 2020

StructPool: Structured Graph Pooling via Conditional Random Fields.

[BibT_eX]

[DOI]

Hao Yuan

Proceedings of the 8th International Conference on Learning Representations, 2020

CorDEL: A Contrastive Deep Learning Approach for Entity Linkage.

[BibT_eX]

[DOI]

Proceedings of the 20th IEEE International Conference on Data Mining, 2020

Context-aware Deep Representation Learning for Geo-spatiotemporal Analysis.

[BibT_eX]

[DOI]

Proceedings of the 20th IEEE International Conference on Data Mining, 2020

Non-Local U-Nets for Biomedical Image Segmentation.

[BibT_eX]

[DOI]

Proceedings of the Thirty-Fourth AAAI Conference on Artificial Intelligence, 2020

Adaptive Convolutional ReLUs.

[BibT_eX]

[DOI]

Proceedings of the Thirty-Fourth AAAI Conference on Artificial Intelligence, 2020

A Multi-Scale Approach for Graph Link Prediction.

[BibT_eX]

[DOI]

Proceedings of the Thirty-Fourth AAAI Conference on Artificial Intelligence, 2020

2019

A Deep Learning Approach for Targeted Contrast-Enhanced Ultrasound Based Prostate Cancer Detection.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2019

A deep transfer learning approach for improved post-traumatic stress disorder diagnosis.

[BibT_eX]

[DOI]

Knowl. Inf. Syst., 2019

Global Transformer U-Nets for Label-Free Prediction of Fluorescence Images.

[BibT_eX]

[DOI]

CoRR, 2019

Computational modeling of cellular structures using conditional deep generative networks.

[BibT_eX]

[DOI]

Bioinform., 2019

XFake: Explainable Fake News Detector with Visualizations.

[BibT_eX]

[DOI]

Proceedings of the World Wide Web Conference, 2019

Learning Graph Pooling and Hybrid Convolutional Operations for Text Representations.

[BibT_eX]

[DOI]

Yongjun Chen

Proceedings of the World Wide Web Conference, 2019

On Attribution of Recurrent Neural Network Predictions via Additive Decomposition.

[BibT_eX]

[DOI]

Proceedings of the World Wide Web Conference, 2019

Spatial Variational Auto-Encoding via Matrix-Variate Normal Distributions.

[BibT_eX]

[DOI]

Hao Yuan

Proceedings of the 2019 SIAM International Conference on Data Mining, 2019

Multi-Stage Variational Auto-Encoders for Coarse-to-Fine Image Generation.

[BibT_eX]

[DOI]

Proceedings of the 2019 SIAM International Conference on Data Mining, 2019

An Interpretable Neural Model with Interactive Stepwise Influence.

[BibT_eX]

[DOI]

Proceedings of the Advances in Knowledge Discovery and Data Mining, 2019

Graph Representation Learning via Hard and Channel-Wise Attention Networks.

[BibT_eX]

[DOI]

Proceedings of the 25th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining, 2019

Dense Transformer Networks for Brain Electron Microscopy Image Segmentation.

[BibT_eX]

[DOI]

Proceedings of the Twenty-Eighth International Joint Conference on Artificial Intelligence, 2019

Learning Hierarchical and Shared Features for Improving 3D Neuron Reconstruction.

[BibT_eX]

[DOI]

Proceedings of the 2019 IEEE International Conference on Data Mining, 2019

Learning Local and Global Multi-context Representations for Document Classification.

[BibT_eX]

[DOI]

Yi Liu

Hao Yuan

Proceedings of the 2019 IEEE International Conference on Data Mining, 2019

An Efficient Policy Gradient Method for Conditional Dialogue Generation.

[BibT_eX]

[DOI]

Proceedings of the 2019 IEEE International Conference on Data Mining, 2019

Interpreting Deep Models for Text Analysis via Optimization and Regularization Methods.

[BibT_eX]

[DOI]

Proceedings of the Thirty-Third AAAI Conference on Artificial Intelligence, 2019

2018

Multi-View Missing Data Completion.

[BibT_eX]

[DOI]

IEEE Trans. Knowl. Data Eng., 2018

Large-scale Exploration of Neuronal Morphologies Using Deep Learning and Augmented Reality.

[BibT_eX]

[DOI]

Neuroinformatics, 2018

Neuronal Activities in the Mouse Visual Cortex Predict Patterns of Sensory Stimuli.

[BibT_eX]

[DOI]

Bian Wu

Neuroinformatics, 2018

Global Deep Learning Methods for Multimodality Isointense Infant Brain Image Segmentation.

[BibT_eX]

[DOI]

CoRR, 2018

Learning Convolutional Text Representations for Visual Question Answering.

[BibT_eX]

[DOI]

Proceedings of the 2018 SIAM International Conference on Data Mining, 2018

ChannelNets: Compact and Efficient Convolutional Neural Networks via Channel-Wise Convolutions.

[BibT_eX]

[DOI]

Proceedings of the Advances in Neural Information Processing Systems 31: Annual Conference on Neural Information Processing Systems 2018, 2018

Large-Scale Learnable Graph Convolutional Networks.

[BibT_eX]

[DOI]

Proceedings of the 24th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining, 2018

Voxel Deconvolutional Networks for 3D Brain Image Labeling.

[BibT_eX]

[DOI]

Proceedings of the 24th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining, 2018

Deep Adversarial Learning for Multi-Modality Missing Data Completion.

[BibT_eX]

[DOI]

Proceedings of the 24th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining, 2018

2017

Feature Selection Based on Structured Sparsity: A Comprehensive Study.

[BibT_eX]

[DOI]

IEEE Trans. Neural Networks Learn. Syst., 2017

Deep Learning Segmentation of Optical Microscopy Images Improves 3-D Neuron Reconstruction.

[BibT_eX]

[DOI]

IEEE Trans. Medical Imaging, 2017

Residual Deconvolutional Networks for Brain Electron Microscopy Image Segmentation.

[BibT_eX]

[DOI]

Ahmed Fakhry

Tao Zeng

IEEE Trans. Medical Imaging, 2017

Dense Transformer Networks.

[BibT_eX]

[DOI]

CoRR, 2017

Pixel Deconvolutional Networks.

[BibT_eX]

[DOI]

CoRR, 2017

DeepEM3D: approaching human-level performance on 3D anisotropic EM image segmentation.

[BibT_eX]

[DOI]

Tao Zeng

Bian Wu

Bioinform., 2017

Multi-Modality Disease Modeling via Collective Deep Matrix Factorization.

[BibT_eX]

[DOI]

Proceedings of the 23rd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, Halifax, NS, Canada, August 13, 2017

Recurrent Encoder-Decoder Networks for Time-Varying Dense Prediction.

[BibT_eX]

[DOI]

Proceedings of the 2017 IEEE International Conference on Data Mining, 2017

Efficient and Invariant Convolutional Neural Networks for Dense Prediction.

[BibT_eX]

[DOI]

Proceedings of the 2017 IEEE International Conference on Data Mining, 2017

A Deep Transfer Learning Approach for Improved Post-Traumatic Stress Disorder Diagnosis.

[BibT_eX]

[DOI]

Proceedings of the 2017 IEEE International Conference on Data Mining, 2017

IDM 2017: Workshop on Interpretable Data Mining - Bridging the Gap between Shallow and Deep Models.

[BibT_eX]

[DOI]

Xia Hu

Proceedings of the 2017 ACM on Conference on Information and Knowledge Management, 2017

2016

Deep models for brain EM image segmentation: novel insights and improved performance.

[BibT_eX]

[DOI]

Ahmed Fakhry

Hanchuan Peng

Bioinform., 2016

Collaborative Multi-View Denoising.

[BibT_eX]

[DOI]

Proceedings of the 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, 2016

Multi-Task Feature Interaction Learning.

[BibT_eX]

[DOI]

Proceedings of the 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, 2016

Parallel Lasso Screening for Big Data Optimization.

[BibT_eX]

[DOI]

Proceedings of the 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, 2016

Deep convolutional neural networks for detecting secondary structures in protein density maps from cryo-electron microscopy.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

2015

Sparsity Learning Formulations for Mining Time-Varying Data.

[BibT_eX]

[DOI]

IEEE Trans. Knowl. Data Eng., 2015

A Robust Deep Model for Improved Classification of AD/MCI Patients.

[BibT_eX]

[DOI]

IEEE J. Biomed. Health Informatics, 2015

Deep convolutional neural networks for multi-modality isointense infant brain image segmentation.

[BibT_eX]

[DOI]

NeuroImage, 2015

Evolutionary soft co-clustering: formulations, algorithms, and applications.

[BibT_eX]

[DOI]

Data Min. Knowl. Discov., 2015

Global analysis of gene expression and projection target correlations in the mouse brain.

[BibT_eX]

[DOI]

Brain Informatics, 2015

Deep convolutional neural networks for annotating gene expression patterns in the mouse brain.

[BibT_eX]

[DOI]

BMC Bioinform., 2015

Automated Gene Expression Pattern Annotation in the Mouse Brain.

[BibT_eX]

[DOI]

Proceedings of the Biocomputing 2015: Proceedings of the Pacific Symposium, 2015

Structural Graphical Lasso for Learning Mouse Brain Connectivity.

[BibT_eX]

[DOI]

Proceedings of the 21th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, 2015

Deep Convolutional Neural Networks for Multi-instance Multi-task Learning.

[BibT_eX]

[DOI]

Tao Zeng

Proceedings of the 2015 IEEE International Conference on Data Mining, 2015

2014

How to Estimate the Regularization Parameter for Spectral Regression Discriminant Analysis and its Kernel Version?

[BibT_eX]

[DOI]

IEEE Trans. Circuits Syst. Video Technol., 2014

Integrative analysis of the connectivity and gene expression atlases in the mouse brain.

[BibT_eX]

[DOI]

Ahmed Fakhry

Houtao Deng

NeuroImage, 2014

Automated identification of cell-type-specific genes in the mouse brain by image computing of expression patterns.

[BibT_eX]

[DOI]

Rongjian Li

BMC Bioinform., 2014

Automated annotation of developmental stages of Drosophila embryos in images containing spatial patterns of expression.

[BibT_eX]

[DOI]

Bioinform., 2014

Deep Learning Based Imaging Data Completion for Improved Brain Disease Diagnosis.

[BibT_eX]

[DOI]

Proceedings of the Medical Image Computing and Computer-Assisted Intervention - MICCAI 2014, 2014

Robust Deep Learning for Improved Classification of AD/MCI Patients.

[BibT_eX]

[DOI]

Proceedings of the Machine Learning in Medical Imaging - 5th International Workshop, 2014

2013

Multiview Partitioning via Tensor Methods.

[BibT_eX]

[DOI]

IEEE Trans. Knowl. Data Eng., 2013

A Probabilistic Latent Semantic Analysis Model for Coclustering the Mouse Brain Atlas.

[BibT_eX]

[DOI]

Rongjian Li

IEEE ACM Trans. Comput. Biol. Bioinform., 2013

3D Convolutional Neural Networks for Human Action Recognition.

[BibT_eX]

[DOI]

IEEE Trans. Pattern Anal. Mach. Intell., 2013

A mesh generation and machine learning framework for Drosophila gene expression pattern image analysis.

[BibT_eX]

[DOI]

BMC Bioinform., 2013

Image-level and group-level models for Drosophila gene expression pattern annotation.

[BibT_eX]

[DOI]

BMC Bioinform., 2013

Computational genetic neuroanatomy of the developing mouse brain: dimensionality reduction, visualization, and clustering.

[BibT_eX]

[DOI]

BMC Bioinform., 2013

Evolutionary Soft Co-Clustering.

[BibT_eX]

[DOI]

Rui Zhang

Proceedings of the 13th SIAM International Conference on Data Mining, 2013

2012

Drosophila Gene Expression Pattern Annotation through Multi-Instance Multi-Label Learning.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2012

Discriminant sparse neighborhood preserving embedding for face recognition.

[BibT_eX]

[DOI]

Pattern Recognit., 2012

Multi-Task Feature Learning Via Efficient l2,1-Norm Minimization

[BibT_eX]

[DOI]

Jun Liu

CoRR, 2012

Learning Sparse Representations for Fruit-Fly Gene Expression Pattern Image Annotation and Retrieval.

[BibT_eX]

[DOI]

BMC Bioinform., 2012

A sparsity-inducing formulation for evolutionary co-clustering.

[BibT_eX]

[DOI]

Jun Liu

Proceedings of the 18th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, 2012

2011

Canonical Correlation Analysis for Multilabel Classification: A Least-Squares Formulation, Extensions, and Analysis.

[BibT_eX]

[DOI]

IEEE Trans. Pattern Anal. Mach. Intell., 2011

FlyExpress: visual mining of spatiotemporal patterns for genes and publications in Drosophila embryogenesis.

[BibT_eX]

[DOI]

Sethuraman Panchanathan

Bioinform., 2011

Computational network analysis of the anatomical and genetic organizations in the mouse brain.

[BibT_eX]

[DOI]

Bioinform., 2011

2010

A shared-subspace learning framework for multi-label classification.

[BibT_eX]

[DOI]

ACM Trans. Knowl. Discov. Data, 2010

Trace Norm Regularization: Reformulations, Algorithms, and Multi-Task Learning.

[BibT_eX]

[DOI]

SIAM J. Optim., 2010

2009

A bag-of-words approach for Drosophila gene expression pattern annotation.

[BibT_eX]

[DOI]

BMC Bioinform., 2009

Multi-Task Feature Learning Via Efficient l2, 1-Norm Minimization.

[BibT_eX]

[DOI]

Jun Liu

Proceedings of the UAI 2009, 2009

Detecting Human Actions in Surveillance Videos.

[BibT_eX]

[DOI]

Proceedings of the TRECVID 2009 workshop participants notebook papers, 2009

Mining discrete patterns via binary matrix factorization.

[BibT_eX]

[DOI]

Bao-Hong Shen

Proceedings of the 15th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, Paris, France, June 28, 2009

Drosophila gene expression pattern annotation using sparse features and term-term interactions.

[BibT_eX]

[DOI]

Proceedings of the 15th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, Paris, France, June 28, 2009

On the Equivalence between Canonical Correlation Analysis and Orthonormalized Partial Least Squares.

[BibT_eX]

[DOI]

Proceedings of the IJCAI 2009, 2009

DrosophilaGene Expression Pattern Annotation through Multi-Instance Multi-Label Learning.

[BibT_eX]

[DOI]

Proceedings of the IJCAI 2009, 2009

Linear Dimensionality Reduction for Multi-label Classification.

[BibT_eX]

[DOI]

Proceedings of the IJCAI 2009, 2009

A least squares formulation for a class of generalized eigenvalue problems in machine learning.

[BibT_eX]

[DOI]

Proceedings of the 26th Annual International Conference on Machine Learning, 2009

An accelerated gradient method for trace norm minimization.

[BibT_eX]

[DOI]

Proceedings of the 26th Annual International Conference on Machine Learning, 2009

2008

Generalized Linear Discriminant Analysis: A Unified Framework and Efficient Model Selection.

[BibT_eX]

[DOI]

IEEE Trans. Neural Networks, 2008

Kernel Uncorrelated and Regularized Discriminant Analysis: A Theoretical and Computational Study.

[BibT_eX]

[DOI]

IEEE Trans. Knowl. Data Eng., 2008

Multi-class Discriminant Kernel Learning via Convex Programming.

[BibT_eX]

[DOI]

Jianhui Chen

J. Mach. Learn. Res., 2008

Adaptive diffusion kernel learning from biological networks for protein function prediction.

[BibT_eX]

[DOI]

BMC Bioinform., 2008

Automated annotation of Drosophila gene expression patterns using a controlled vocabulary.

[BibT_eX]

[DOI]

Bioinform., 2008

Multi-label Multiple Kernel Learning.

[BibT_eX]

[DOI]

Proceedings of the Advances in Neural Information Processing Systems 21, 2008

Hypergraph spectral learning for multi-label classification.

[BibT_eX]

[DOI]

Proceedings of the 14th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, 2008

Extracting shared subspace for multi-label classification.

[BibT_eX]

[DOI]

Proceedings of the 14th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, 2008

Learning subspace kernels for classification.

[BibT_eX]

[DOI]

Proceedings of the 14th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, 2008

A least squares formulation for canonical correlation analysis.

[BibT_eX]

[DOI]

Proceedings of the Machine Learning, 2008

A unified framework for generalized Linear Discriminant Analysis.

[BibT_eX]

[DOI]

Proceedings of the 2008 IEEE Computer Society Conference on Computer Vision and Pattern Recognition (CVPR 2008), 2008

2007

Learning the kernel matrix in discriminant analysis via quadratically constrained quadratic programming.

[BibT_eX]

[DOI]

Jianhui Chen

Proceedings of the 13th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, 2007

Discriminant kernel and regularization parameter learning via semidefinite programming.

[BibT_eX]

[DOI]

Jianhui Chen