Chengfei Yan

发表

Comprehensive functional genomic resource and integrative model for the human brain

Prashant S. Emani, M. Gerstein, Z. Weng, 2018, Science.

Supervised enhancer prediction with epigenetic pattern recognition and targeted validation

Kevin Y. Yip, Tyler H. Garvin, M. Gerstein, 2018, Nature Methods.

The Usage of ACCLUSTER for Peptide Binding Site Prediction.

Xianjin Xu, X. Zou, Chengfei Yan, 2017, Methods in molecular biology.

Genomics and data science: an application within an umbrella

Mark Gerstein, Chengfei Yan, Shantao Li, 2019, Genome Biology.

Fully Blind Docking at the Atomic Level for Protein-Peptide Complex Structure Prediction.

Chengfei Yan, Xiaoqin Zou, Xianjin Xu, 2016, Structure.

Predicting peptide binding sites on protein surfaces by clustering chemical interactions

Chengfei Yan, Xiaoqin Zou, X. Zou, 2015, J. Comput. Chem..

Modeling Protein Flexibility in Molecular Docking

X. Zou, Chengfei Yan, 2017 .

MDock: An Ensemble Docking Suite for Molecular Docking, Scoring and In Silico Screening

Chengfei Yan, Xiaoqin Zou, X. Zou, 2015 .

Protein complex structure prediction powered by multiple sequence alignments of interologs from multiple taxonomic ranks and AlphaFold2.

Chengfei Yan, Yunda Si, 2022, Briefings in bioinformatics.

Improved inter-protein contact prediction using dimensional hybrid residual networks and protein language models

Chengfei Yan, Yunda Si, 2022, bioRxiv.

The EN-TEx resource of multi-tissue personal epigenomes & variant-impact models

William Stafford Noble, James C. Wright, Jacob M. Schreiber, 2022, Cell.

A Reproducibility Analysis-based Statistical Framework for Residue-Residue Evolutionary Coupling Detection

Chengfei Yan, Yunda Si, Yi Zhang, 2021, bioRxiv.

Protein language model embedded geometric graphs power inter-protein contact prediction

Chengfei Yan, Yunda Si, 2023, bioRxiv.

Preparation and pH Detection Performance of Rosin-Based Fluorescent Polyurethane Microspheres.

Chengfei Yan, Caili Yu, F. Zhang, 2023, Journal of fluorescence.

Supervised enhancer prediction with epigenetic pattern recognition and targeted validation

Mark Gerstein, Chengfei Yan, Axel Visel, 2018, Nature Methods.

Multi-tissue integrative analysis of personal epigenomes

William Stafford Noble, James C. Wright, Jacob M. Schreiber, 2021 .

Building a Hybrid Physical-Statistical Classifier for Predicting the Effect of Variants Related to Protein-Drug Interactions.

Bo Wang, Mark Gerstein, Chengfei Yan, 2019, Structure.

Multi-tissue integrative analysis of personal epigenomes [preprint] Multi-tissue integrative analysis of personal epigenomes [preprint] you.

Lei, James C. Wright, Jacob M. Schreiber, 2021 .

A chemical genetic approach demonstrates that MPK3/MPK6 activation and NADPH oxidase-mediated oxidative burst are two independent signaling events in plant immunity.

X. Zou, D. Ren, Chengfei Yan, 2014, The Plant journal : for cell and molecular biology.

Prediction of homoprotein and heteroprotein complexes by protein docking and template‐based modeling: A CASP‐CAPRI experiment

Daisuke Kihara, Keehyoung Joo, Daisuke Kuroda, 2016, Proteins.

Automated Large-Scale File Preparation, Docking, and Scoring: Evaluation of ITScore and STScore Using the 2012 Community Structure-Activity Resource Benchmark

Chengfei Yan, Xiaoqin Zou, Lin Jiang, 2013, J. Chem. Inf. Model..

HiC-spector: a matrix library for spectral and reproducibility analysis of Hi-C contact maps

Mark Gerstein, William Stafford Noble, Chengfei Yan, 2016, bioRxiv.

Computation and simulation of the structural characteristics of the kidney urea transporter and behaviors of urea transport.

X. Zou, Chengfei Yan, J. Sang, 2015, The journal of physical chemistry. B.

Genomics and data science: an application within an umbrella

M. Gerstein, Fábio C. P. Navarro, Hussein Mohsen, 2019, Genome biology.

Iterative Knowledge-Based Scoring Functions Derived from Rigid and Flexible Decoy Structures: Evaluation with the 2013 and 2014 CSAR Benchmarks

Chengfei Yan, Xiaoqin Zou, Zhiwei Ma, 2016, J. Chem. Inf. Model..

Improving binding mode and binding affinity predictions of docking by ligand-based search of protein conformations: evaluation in D3R grand challenge 2015

Chengfei Yan, Xiaoqin Zou, Xianjin Xu, 2017, Journal of Computer-Aided Molecular Design.

Protein Complex Structure Prediction Powered by Multiple Sequence Alignments of Interologs from Multiple Taxonomic Ranks and AlphaFold2

Chengfei Yan, Yunda Si, 2021, bioRxiv.

MDockPeP: An ab‐initio protein–peptide docking server

Chengfei Yan, Xiaoqin Zou, Xianjin Xu, 2018, J. Comput. Chem..

Improved protein contact prediction using dimensional hybrid residual networks and singularity enhanced loss function.

Chengfei Yan, Yunda Si, 2021, Briefings in bioinformatics.

Improved protein contact prediction using dimensional hybrid residual networks and singularity enhanced loss function

Chengfei Yan, Yunda Si, 2021, bioRxiv.

Protein language model embedded geometric graphs power inter-protein contact prediction

Chengfei Yan, Yunda Si, 2023, bioRxiv.

Predicting peptide binding sites on protein surfaces by clustering chemical interactions

X. Zou, Chengfei Yan, 2015, J. Comput. Chem..

Inclusion of the orientational entropic effect and low‐resolution experimental information for protein–protein docking in Critical Assessment of PRedicted Interactions (CAPRI)

Chengfei Yan, Xiaoqin Zou, Sheng-You Huang, 2013, Proteins.