Jianyang Zeng

Orcid: 0000-0003-0950-7716

Affiliations:

Westlake University, School of Engineering, Hangzhou, China
Tsinghua University, Institute for Interdisciplinary Information Sciences, Beijing, China
Duke University, Department of Computer Science, Durham, NC, USA (PhD 2011)

According to our database¹, Jianyang Zeng authored at least 49 papers between 2003 and 2024.

Collaborative distances:

Dijkstra number² of four.
Erdős number³ of three.

Timeline

Legend:

Book

In proceedings

Article

PhD thesis

Dataset

Other

Bibliography

2024

A probabilistic knowledge graph for target identification.

[BibT_eX]

[DOI]

PLoS Comput. Biol., 2024

MolSHAP: Interpreting Quantitative Structure-Activity Relationships Using Shapley Values of R-Groups.

[BibT_eX]

[DOI]

J. Chem. Inf. Model., 2024

PepGB: Facilitating peptide drug discovery via graph neural networks.

[BibT_eX]

[DOI]

CoRR, 2024

PRS-Net: Interpretable Polygenic Risk Scores via Geometric Learning.

[BibT_eX]

[DOI]

Proceedings of the Research in Computational Molecular Biology, 2024

2023

DeepRCI: predicting RNA-chromatin interactions via deep learning with multi-omics data.

[BibT_eX]

[DOI]

Quant. Biol., September, 2023

Improving comparative analyses of Hi-C data via contrastive self-supervised learning.

[BibT_eX]

[DOI]

Briefings Bioinform., July, 2023

Characterizing the interaction conformation between T-cell receptors and epitopes with deep learning.

[BibT_eX]

[DOI]

Nat. Mac. Intell., April, 2023

DrugAI: a multi-view deep learning model for predicting drug-target activating/inhibiting mechanisms.

[BibT_eX]

[DOI]

Briefings Bioinform., January, 2023

2022

Predicting the protein-ligand affinity from molecular dynamics trajectories.

[BibT_eX]

[DOI]

CoRR, 2022

Boosting single-cell gene regulatory network reconstruction via bulk-cell transcriptomic data.

[BibT_eX]

[DOI]

Briefings Bioinform., 2022

KPGT: Knowledge-Guided Pre-training of Graph Transformer for Molecular Property Prediction.

[BibT_eX]

[DOI]

Han Li

Dan Zhao

Jianyang Zeng

Proceedings of the KDD '22: The 28th ACM SIGKDD Conference on Knowledge Discovery and Data Mining, Washington, DC, USA, August 14, 2022

2021

Full-length ribosome density prediction by a multi-input and multi-output model.

[BibT_eX]

[DOI]

PLoS Comput. Biol., 2021

Modeling gene regulatory networks using neural network architectures.

[BibT_eX]

[DOI]

Nat. Comput. Sci., 2021

Characterizing RNA Pseudouridylation by Convolutional Neural Networks.

[BibT_eX]

[DOI]

Genom. Proteom. Bioinform., 2021

Predicting MHC-peptide binding affinity by differential boundary tree.

[BibT_eX]

[DOI]

Peiyuan Feng

Jianyang Zeng

Jianzhu Ma

Bioinform., 2021

Riboexp: an interpretable reinforcement learning framework for ribosome density modeling.

[BibT_eX]

[DOI]

Briefings Bioinform., 2021

2020

A novel machine learning framework for automated biomedical relation extraction from large-scale literature repositories.

[BibT_eX]

[DOI]

Nat. Mach. Intell., 2020

Secure multiparty computation for privacy-preserving drug discovery.

[BibT_eX]

[DOI]

Bioinform., 2020

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

[BibT_eX]

[DOI]

Proceedings of the Research in Computational Molecular Biology, 2020

2019

DeepCPI: A Deep Learning-based Framework for Large-scale <i>in silico</i> Drug Screening.

[BibT_eX]

[DOI]

Genom. Proteom. Bioinform., 2019

DeepShape: estimating isoform-level ribosome abundance and distribution with Ribo-seq data.

[BibT_eX]

[DOI]

BMC Bioinform., 2019

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

[BibT_eX]

[DOI]

Bioinform., 2019

Metagenomic binning through low-density hashing.

[BibT_eX]

[DOI]

Bioinform., 2019

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

[BibT_eX]

[DOI]

Bioinform., 2019

ACME: pan-specific peptide-MHC class I binding prediction through attention-based deep neural networks.

[BibT_eX]

[DOI]

Bioinform., 2019

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

[BibT_eX]

[DOI]

Bioinform., 2019

2017

Elastic restricted Boltzmann machines for cancer data analysis.

[BibT_eX]

[DOI]

Quant. Biol., 2017

TITER: predicting translation initiation sites by deep learning.

[BibT_eX]

[DOI]

Bioinform., 2017

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

[BibT_eX]

[DOI]

Dapeng Xiong

Jianyang Zeng

Haipeng Gong

Bioinform., 2017

ROSE: A Deep Learning Based Framework for Predicting Ribosome Stalling.

[BibT_eX]

[DOI]

Proceedings of the Research in Computational Molecular Biology, 2017

A Network Integration Approach for Drug-Target Interaction Prediction and Computational Drug Repositioning from Heterogeneous Information.

[BibT_eX]

[DOI]

Proceedings of the Research in Computational Molecular Biology, 2017

2016

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

[BibT_eX]

[DOI]

Yichao Zhou

Yuexin Wu

Jianyang Zeng

J. Comput. Biol., 2016

cOSPREY: A Cloud-Based Distributed Algorithm for Large-Scale Computational Protein Design.

[BibT_eX]

[DOI]

J. Comput. Biol., 2016

Constructing Structure Ensembles of Intrinsically Disordered Proteins from Chemical Shift Data.

[BibT_eX]

[DOI]

J. Comput. Biol., 2016

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

[BibT_eX]

[DOI]

CoRR, 2016

Approximation of barter exchanges with cycle length constraints.

[BibT_eX]

[DOI]

CoRR, 2016

Low-Density Locality-Sensitive Hashing Boosts Metagenomic Binning.

[BibT_eX]

[DOI]

Proceedings of the Research in Computational Molecular Biology - 20th Annual Conference, 2016

2015

Integrative Data Analysis of Multi-Platform Cancer Data with a Multimodal Deep Learning Approach.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2015

Massively Parallel A* Search on a GPU.

[BibT_eX]

[DOI]

Yichao Zhou

Jianyang Zeng

Proceedings of the Twenty-Ninth AAAI Conference on Artificial Intelligence, 2015

2014

An efficient parallel algorithm for accelerating computational protein design.

[BibT_eX]

[DOI]

Bioinform., 2014

2013

Predicting drug-target interactions using restricted Boltzmann machines.

[BibT_eX]

[DOI]

Yuhao Wang

Jianyang Zeng

Bioinform., 2013

2011

Novel Algorithms for Automated NMR Assignment and Protein Structure Determination.

[BibT_eX]

[DOI]

Jianyang Zeng

PhD thesis, 2011

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

[BibT_eX]

[DOI]

J. Comput. Biol., 2011

Protein Loop Closure Using Orientational Restraints from NMR Data.

[BibT_eX]

[DOI]

Chittaranjan Tripathy

Jianyang Zeng

Pei Zhou

Bruce Randall Donald

Proceedings of the Research in Computational Molecular Biology, 2011

2010

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

[BibT_eX]

[DOI]

Jianyang Zeng

Pei Zhou

Bruce Randall Donald

Proceedings of the Research in Computational Molecular Biology, 2010

2005

Optimal Routing in a Small-World Network.

[BibT_eX]

[DOI]

Jianyang Zeng

Wen-Jing Hsu

Proceedings of the Sixth International Conference on Parallel and Distributed Computing, 2005

ReCord: A Distributed Hash Table with Recursive Structure.

[BibT_eX]

[DOI]

Jianyang Zeng

Wen-Jing Hsu

Proceedings of the Sixth International Conference on Parallel and Distributed Computing, 2005

2004

Looking Further Ahead Reveals An Even Smaller World

[BibT_eX]

[DOI]

Jianyang Zeng

Wen-Jing Hsu

Yahong Hu

CoRR, 2004

2003

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

[BibT_eX]

[DOI]

Jianyang Zeng

Wen-Jing Hsu

Proceedings of the 2003 IEEE International Conference on Robotics and Automation, 2003

Jianyang Zeng

Timeline

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