Jianyang Zeng

Wen-Jing Hsu, Jianyang Zeng, Jianyang Zeng, 2004, Sixth International Conference on Parallel and Distributed Computing Applications and Technologies (PDCAT'05).

A deep learning framework for improving long‐range residue‐residue contact prediction using a hierarchical strategy

Dapeng Xiong, Jianyang Zeng, Haipeng Gong, 2017, Bioinform..

Parallel Computational Protein Design.

Yichao Zhou, Jianyang Zeng, Bruce R Donald, 2017, Methods in molecular biology.

Predicting drug-target interactions using restricted Boltzmann machines

Yuhao Wang, Jianyang Zeng, Jianyang Zeng, 2013, Bioinform..

DIFFUSE: predicting isoform functions from sequences and expression profiles via deep learning

Dongbo Bu, Jianyang Zeng, Hao Chen, 2019, Bioinform..

Constructing Structure Ensembles of Intrinsically Disordered Proteins from Chemical Shift Data

Jianyang Zeng, Sai Zhang, Haipeng Gong, 2015, RECOMB.

Computational Protein Design Using AND/OR Branch-and-Bound Search pdf

Yuexin Wu, Yichao Zhou, Jianyang Zeng, 2015, RECOMB.

An efficient parallel algorithm for accelerating computational protein design

Bruce Randall Donald, Wei Xu, Yichao Zhou, 2014, Bioinform..

DeepHINT: understanding HIV-1 integration via deep learning with attention

Tao Jiang, Yangyang Li, Lei Zhang, 2019, Bioinform..

A Markov Random Field Framework for Protein Side-Chain Resonance Assignment

Pei Zhou, Bruce Randall Donald, Jianyang Zeng, 2010, RECOMB.

Novel Algorithms for Automated NMR Assignment and Protein Structure Determination

Jianyang Zeng, Jianyang Zeng, 2011 .

Construction of Scale-Free Networks with Partial Information

Wen-Jing Hsu, Suiping Zhou, Jianyang Zeng, 2005, COCOON.

Conflict-free routing of AGVs on the mesh topology based on a discrete-time model

Wen-Jing Hsu, Jianyang Zeng, 2003, ICRA.

A Bayesian Approach for Determining Protein Side-Chain Rotamer Conformations Using Unassigned NOE Data

Pei Zhou, Bruce Randall Donald, Jianyang Zeng, 2011, RECOMB.

DeepPicker: a Deep Learning Approach for Fully Automated Particle Picking in Cryo-EM

Tian Xia, Feng Wang, Xueming Li, 2016, Journal of structural biology.

A Bayesian Approach for Determining Protein Side-Chain Rotamer Conformations Using Unassigned NOE Data

Pei Zhou, Bruce Randall Donald, Jianyang Zeng, 2011, RECOMB.

Integrating Hi-C and FISH data for modeling 3D organizations of chromosomes

Michael Q. Zhang, Bin Zhou, Jianyang Zeng, 2018, bioRxiv.

RBRIdent: An algorithm for improved identification of RNA‐binding residues in proteins from primary sequences

Dapeng Xiong, Jianyang Zeng, Haipeng Gong, 2015, Proteins.

Near Optimal Routing for Small-World Networks with Augmented Local Awareness

Wen-Jing Hsu, Jianyang Zeng, Jiangdian Wang, 2004 .

NeoDTI: Neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions

Tao Jiang, An Xiao, Jianyang Zeng, 2018, bioRxiv.

MONN: A Multi-objective Neural Network for Predicting Pairwise Non-covalent Interactions and Binding Affinities Between Compounds and Proteins

Dan Zhao, Jianyang Zeng, Tao Jiang, 2020, RECOMB.

Drug-target interaction prediction by integrating chemical, genomic, functional and pharmacological data.

Fan Yang, Jinbo Xu, Jianyang Zeng, 2013, Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing.

Approximation of barter exchanges with cycle length constraints pdf

Jianyang Zeng, Pingzhong Tang, Chenggang Wu, 2016, ArXiv.

Computational Protein Design Using AND/OR Branch-and-Bound Search

Yuexin Wu, Yichao Zhou, Jianyang Zeng, 2014, RECOMB.

Near Optimal Routing in a Small-World Network with Augmented Local Awareness

Wen-Jing Hsu, Jianyang Zeng, Jiangdian Wang, 2005, ISPA.

Crowdsourced mapping of unexplored target space of kinase inhibitors

Avner Schlessinger, Krister Wennerberg, Tero Aittokallio, 2021, Nature communications.

Riboexp: an interpretable reinforcement learning framework for ribosome density modeling

Sen Song, Jianyang Zeng, Tao Jiang, 2021, Briefings Bioinform..

A deep boosting based approach for capturing the sequence binding preferences of RNA-binding proteins from high-throughput CLIP-seq data

Yuexin Wu, Jianyang Zeng, Tao Jiang, 2016, bioRxiv.

Metagenomic binning through low density hashing

Bonnie Berger, Jianyang Zeng, Yunan Luo, 2017 .

Reconstructing spatial organizations of chromosomes through manifold learning

Jian Peng, Jianyang Zeng, Hailin Hu, 2018, Nucleic acids research.

Protein loop closure using orientational restraints from NMR data

Bruce Randall Donald, Chittaranjan Tripathy, Jianyang Zeng, 2012, Proteins.

Protein side-chain resonance assignment and NOE assignment using RDC-defined backbones without TOCSY data

Bruce Randall Donald, Jianyang Zeng, B. Donald, 2011, Journal of biomolecular NMR.

Inferential modeling of 3 D chromatin structure

Jinbo Xu, Jianyang Zeng, Jinbo Xu, 2015 .

TIDE: predicting translation initiation sites by deep learning

Jianyang Zeng, Tao Jiang, Hailin Hu, 2017, bioRxiv.

Improving the orientation‐dependent statistical potential using a reference state

Jianyang Zeng, Haipeng Gong, Yufeng Liu, 2014, Proteins.

Allelic reprogramming of 3D chromatin architecture during early mammalian development

Jing He, Michael Q. Zhang, Jianyang Zeng, 2017, Nature.

Supplementary Material for “ Predicting Drug-Target Interactions Using Restricted Boltzmann Machines ”

Jianyang Zeng, Yuhao Wang, 2013 .

High-resolution protein structure determination starting with a global fold calculated from exact solutions to the RDC equations

Bruce Randall Donald, Chittaranjan Tripathy, Jianyang Zeng, 2009, Journal of biomolecular NMR.

DeepHINT: Understanding HIV-1 integration via deep learning with attention

Lei Zhang, Jianyang Zeng, Tao Jiang, 2018, bioRxiv.