Jian Peng

发表

Convex max-product algorithms for continuous MRFs with applications to protein folding

David A. McAllester, R. Urtasun, Tamir Hazan, 2011, ICML 2011.

A conditional neural fields model for protein threading

Jian Peng, Sheng Wang, Jianzhu Ma, 2012, Bioinform..

Estimating the Partition Function of Graphical Models Using Langevin Importance Sampling

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

Template-based protein structure modeling using the RaptorX web server

Jian Peng, Sheng Wang, Jinbo Xu, 2012, Nature Protocols.

Approximate Inference by Intersecting Semidenite Bound and

Nathan Srebro, Tamir Hazan, Jian Peng, 2012 .

Protein structure alignment beyond spatial proximity

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

Statistical inference for template-based protein structure prediction

Jian Peng, 2013, 1306.4420.

Modeling large regions in proteins: Applications to loops, termini, and folding

Michael Wilde, Jinbo Xu, Jian Peng, 2012, Protein science : a publication of the Protein Society.

iTreePack: Protein Complex Side-Chain Packing by Dual Decomposition

Bonnie Berger, Jinbo Xu, Jian Peng, 2015, 1504.05467.

Template‐based and free modeling by RAPTOR++ in CASP8

Jinbo Xu, Feng Zhao, Jian Peng, 2009, Proteins.

Protein structure alignment beyond spatial proximity

Jianzhu Ma, Jinbo Xu, Sheng Wang, 2013 .

Directed Weight Neural Networks for Protein Structure Representation Learning

L. Guibas, Jian Peng, Jianzhu Ma, 2022, ArXiv.

A profile entropy dependent scoring function for protein threading

Jian Peng, Chi Xu, 2009 .

Antigen-Specific Antibody Design and Optimization with Diffusion-Based Generative Models

Jian Peng, Jianzhu Ma, Shitong Luo, 2022, bioRxiv.

Directed Weight Neural Networks for Protein Structure Representation Learning

L. Guibas, Jian Peng, Jianzhu Ma, 2022, ArXiv.

Antigen-Specific Antibody Design and Optimization with Diffusion-Based Generative Models for Protein Structures

Jian Peng, Jianzhu Ma, Shitong Luo, 2022, bioRxiv.

Boosting Protein Threading Accuracy

Jian Peng, Jinbo Xu, Jian Peng, 2009, RECOMB.

Low-homology protein threading

Jian Peng, Jinbo Xu, Jian Peng, 2010, Bioinform..

Rotamer Density Estimator is an Unsupervised Learner of the Effect of Mutations on Protein-Protein Interaction

Jian Peng, Jianzhu Ma, Shitong Luo, 2023, bioRxiv.

Protein Secondary Structure Prediction Using Deep Convolutional Neural Fields

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

Raptorx: Exploiting structure information for protein alignment by statistical inference

Jinbo Xu, Jian Peng, Jian Peng, 2011, Proteins.

Protein 8-class secondary structure prediction using Conditional Neural Fields

Zhiyong Wang, Jinbo Xu, Feng Zhao, 2010, 2010 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).

3D Equivariant Diffusion for Target-Aware Molecule Generation and Affinity Prediction

Wesley Wei Qian, Jian Peng, Jianzhu Ma, 2023, ICLR.

Pocket2Mol: Efficient Molecular Sampling Based on 3D Protein Pockets

Shitong Luo, Jian Peng, Jian Peng, 2022, ICML.

A 3D Molecule Generative Model for Structure-Based Drug Design

Jian Peng, Jianzhu Ma, Shitong Luo, 2022, ArXiv.

Tightening Fractional Covering Upper Bounds on the Partition Function for High-Order Region Graphs

Tamir Hazan, Jian Peng, Amnon Shashua, 2012, UAI.

A multiple‐template approach to protein threading

Jinbo Xu, Jian Peng, Jian Peng, 2011, Proteins.

Approximate Inference by Intersecting Semidefinite Bound and Local Polytope

Tamir Hazan, Jian Peng, Nathan Srebro, 2012, AISTATS.

A Probabilistic and Continuous Model of Protein Conformational Space for Template-Free Modeling

Feng Zhao, Jian Peng, Jinbo Xu, 2010, J. Comput. Biol..

Fragment-free approach to protein folding using conditional neural fields

Feng Zhao, Jian Peng, Jinbo Xu, 2010, Bioinform..

A Probabilistic Graphical Model for Ab Initio Folding

Feng Zhao, Jian Peng, Jinbo Xu, 2009, RECOMB.

Alignment of distantly related protein structures: algorithm, bound and implications to homology modeling

Jian Peng, Sheng Wang, Jinbo Xu, 2011, Bioinform..

Rotamer Density Estimator is an Unsupervised Learner of the Effect of Mutations on Protein-Protein Interaction

Jian Peng, Jianzhu Ma, Shitong Luo, 2024, bioRxiv.