Jianzhu Ma

Jianzhu Ma, Wenpin Jiao, Tingxun Shi, 2011, 2011 Eighth IEEE International Conference and Workshops on Engineering of Autonomic and Autonomous Systems.

MRFalign: Protein Homology Detection through Alignment of Markov Random Fields

Zhiyong Wang, Sheng Wang, Jianzhu Ma, 2014, RECOMB.

Bermuda: Bidirectional de novo assembly of transcripts with new insights for handling uneven coverage

Jianzhu Ma, Jinbo Xu, Sheng Wang, 2015, 1506.05538.

Protein Secondary Structure Prediction Using Deep Convolutional Neural Fields

Jian Peng, Sheng Wang, Jianzhu Ma, 2015, Scientific Reports.

Classifying tumors by supervised network propagation

Trey Ideker, Jianzhu Ma, Wei Zhang, 2018, Bioinform..

AUCpreD: proteome-level protein disorder prediction by AUC-maximized deep convolutional neural fields

Sheng Wang, Jianzhu Ma, Jinbo Xu, 2016, Bioinform..

Protein threading using context-specific alignment potential

Feng Zhao, Sheng Wang, Jianzhu Ma, 2013, Bioinform..

MRFalign: Protein Homology Detection through Alignment of Markov Random Fields

Zhiyong Wang, Sheng Wang, Jianzhu Ma, 2014, PLoS Comput. Biol..

Protein Contact Prediction by Integrating Joint Evolutionary Coupling Analysis and Supervised Learning

Zhiyong Wang, Sheng Wang, Jianzhu Ma, 2015, RECOMB.

ModuleAlign: module-based global alignment of protein-protein interaction networks

Jianzhu Ma, Jinbo Xu, Stefan Canzar, 2016, Bioinform..

Structure Learning Constrained by Node-Specific Degree Distribution

Feng Zhao, Jianzhu Ma, Jinbo Xu, 2015, UAI.

A browser-based framework for data cache in Web-delivered service composition

Qi Zhao, Xuanzhe Liu, Gang Huang, 2010, 2010 IEEE International Conference on Service-Oriented Computing and Applications (SOCA).

Estimating the Partition Function of Graphical Models Using Langevin Importance Sampling

Jian Peng, Sheng Wang, Jianzhu Ma, 2013, AISTATS.

PALM: Probabilistic area loss Minimization for Protein Sequence Alignment

Jianzhu Ma, Jinbo Xu, Yexiang Xue, 2021, UAI.

Few-shot learning creates predictive models of drug response that translate from high-throughput screens to individual patients

Roded Sharan, Jian Peng, Marc Hafner, 2021, Nature Cancer.

Quantifying spatial homogeneity of urban road networks via graph neural networks pdf

Satish V. Ukkusuri, Jianzhu Ma, Senwei Liang, 2021, ArXiv.

XOR-CD: Linearly Convergent Constrained Structure Generation

Jianzhu Ma, Jinbo Xu, Yexiang Xue, 2021, ICML.

Code for paper "Modeling Gene Regulatory Networks Using Neural Network Architectures"

Jianzhu Ma, Qiuyu Lian, Jingtian Zhou, 2021 .

Neural Higher-order Pattern (Motif) Prediction in Temporal Networks pdf

Jianzhu Ma, Pan Li, Yunyu Liu, 2021, ArXiv.

Fast Projection onto the Capped Simplex withApplications to Sparse Regression in Bioinformatics pdf

Jianzhu Ma, Andersen Ang, Kun Huang, 2021, NeurIPS.

Modeling gene regulatory networks using neural network architectures

Jianzhu Ma, Qiuyu Lian, Jingtian Zhou, 2021, Nature Computational Science.

Breaking the Limit of Graph Neural Networks by Improving the Assortativity of Graphs with Local Mixing Patterns

Jennifer Neville, Jianzhu Ma, Pan Li, 2021, KDD.

Contrastive Cycle Adversarial Autoencoders for Single-cell Multi-omics Alignment and Integration

Jianzhu Ma, Zhihang Hu, Yu Li, 2021, bioRxiv.

Protein structure alignment beyond spatial proximity

Jianzhu Ma, Jinbo Xu, Sheng Wang, 2013 .

A conditional neural fields model for protein threading

Jianzhu Ma, Jinbo Xu, Sheng Wang, 2013 .

Visible Machine Learning for Biomedicine

Benjamin J. Raphael, Trey Ideker, Jianzhu Ma, 2018, Cell.

Annotating gene sets by mining large literature collections with protein networks

Jiawei Han, Trey Ideker, Jianzhu Ma, 2017, PSB.

Protein threading using context-specific alignment potential

Jianzhu Ma, Jinbo Xu, Sheng Wang, 2013 .

Quantitative translation of dog-to-human aging by conserved remodeling of epigenetic networks

Peter D. Adams, Trey Ideker, Jianzhu Ma, 2019, bioRxiv.

Protein structure alignment beyond spatial proximity

Jianzhu Ma, Jinbo Xu, Sheng Wang, 2013, Scientific Reports.

An Integrative Computational Approach for Prioritization of Genomic Variants

Inna Dubchak, Jianzhu Ma, Jinbo Xu, 2014, PloS one.