Skip to Main Content

Author Details

Jinbo Xu
Toyota Technological Institute at Chicago
2003
92
37
PMIDPaper TitleJournal TitlePublished Year
36355462Improving protein structure prediction using templates and sequence embedding.Bioinformatics2023
37253017An end-to-end deep learning method for protein side-chain packing and inverse folding.Proc Natl Acad Sci U S A2023
37328552Improved the heterodimer protein complex prediction with protein language models.Brief Bioinform2023
37262156The landscape of tolerated genetic variation in humans and primates.Science2023
34755837Deep graph learning of inter-protein contacts.Bioinformatics2022
35576194Annotating functional effects of non-coding variants in neuropsychiatric cell types by deep transfer learning.PLoS Comput Biol2022
34891158A tale of solving two computational challenges in protein science: neoantigen prediction and protein structure prediction.Brief Bioinform2022
35073170ProALIGN: Directly Learning Alignments for Protein Structure Prediction via Exploiting Context-Specific Alignment Motifs.J Comput Biol2022
34882195Accurate protein function prediction via graph attention networks with predicted structure information.Brief Bioinform2022
33325480Improved protein model quality assessment by integrating sequential and pairwise features using deep learning.Bioinformatics2021
35321360Fast and effective protein model refinement using deep graph neural networks.Nat Comput Sci2021
33939695Deep template-based protein structure prediction.PLoS Comput Biol2021
33961022Study of real-valued distance prediction for protein structure prediction with deep learning.Bioinformatics2021
34368623Improved protein structure prediction by deep learning irrespective of co-evolution information.Nat Mach Intell2021
31583631A Web-Based Protocol for Interprotein Contact Prediction by Deep Learning.Methods Mol Biol2020
30559491Author Correction: Predicting the clinical impact of human mutation with deep neural networks.Nat Genet2019
30084960PredMP: a web server for de novo prediction and visualization of membrane proteins.Bioinformatics2019
31471916Analysis of distance-based protein structure prediction by deep learning in CASP13.Proteins2019
28845538Analysis of deep learning methods for blind protein contact prediction in CASP12.Proteins2018
30038395Predicting the clinical impact of human mutation with deep neural networks.Nat Genet2018
29949980Protein threading using residue co-variation and deep learning.Bioinformatics2018
30423091Predicting protein-protein interactions through sequence-based deep learning.Bioinformatics2018
30559359Microbiome characterization by high-throughput transfer RNA sequencing and modification analysis.Nat Commun2018
29618526Opportunities and obstacles for deep learning in biology and medicine.J R Soc Interface2018
29745828RaptorX-Angle: real-value prediction of protein backbone dihedral angles through a hybrid method of clustering and deep learning.BMC Bioinformatics2018
29790960ComplexContact: a web server for inter-protein contact prediction using deep learning.Nucleic Acids Res2018
28056090Accurate De Novo Prediction of Protein Contact Map by Ultra-Deep Learning Model.PLoS Comput Biol2017
29036497Forecasting residue-residue contact prediction accuracy.Bioinformatics2017
28991724A Sparse Learning Framework for Joint Effect Analysis of Copy Number Variants.IEEE/ACM Trans Comput Biol Bioinform2017
28957654Folding Membrane Proteins by Deep Transfer Learning.Cell Syst2017
26752681Protein Secondary Structure Prediction Using Deep Convolutional Neural Fields.Sci Rep2016
28884168AUC-Maximized Deep Convolutional Neural Fields for Protein Sequence Labeling.Mach Learn Knowl Discov Databases2016
26590263Lynx: a knowledge base and an analytical workbench for integrative medicine.Nucleic Acids Res2016
27587688AUCpreD: proteome-level protein disorder prediction by AUC-maximized deep convolutional neural fields.Bioinformatics2016
27587686ModuleAlign: module-based global alignment of protein-protein interaction networks.Bioinformatics2016
27428933Joint Alignment of Multiple Protein-Protein Interaction Networks via Convex Optimization.J Comput Biol2016
27112573RaptorX-Property: a web server for protein structure property prediction.Nucleic Acids Res2016
27112569CoinFold: a web server for protein contact prediction and contact-assisted protein folding.Nucleic Acids Res2016
25690896Inferential modeling of 3D chromatin structure.Nucleic Acids Res2015
26275894Protein contact prediction by integrating joint evolutionary coupling analysis and supervised learning.Bioinformatics2015
25844670Disease gene prioritization using network and feature.J Comput Biol2015
24292961High-throughput translational medicine: challenges and solutions.Adv Exp Med Biol2014
25161231HubAlign: an accurate and efficient method for global alignment of protein-protein interaction networks.Bioinformatics2014
24573471RaptorX server: a resource for template-based protein structure modeling.Methods Mol Biol2014
24689773Finding alternative expression quantitative trait loci by exploring sparse model space.J Comput Biol2014
24675572MRFalign: protein homology detection through alignment of Markov random fields.PLoS Comput Biol2014
24270788Lynx: a database and knowledge extraction engine for integrative medicine.Nucleic Acids Res2014
24297542Drug-target interaction prediction by integrating chemical, genomic, functional and pharmacological data.Pac Symp Biocomput2014
23486213Protein structure alignment beyond spatial proximity.Sci Rep2013
23812992Predicting protein contact map using evolutionary and physical constraints by integer programming.Bioinformatics2013
  • 1 - 50 of 92

Recommended Authors

Chengxin Zhang
University of Michigan ann arbor
Career Start Year 2017
Number of shared co-authors 1
Minkyung Baek
Seoul National University
Career Start Year 2016
Number of shared co-authors 0
Tsukasa Nakamura
Purdue University
Career Start Year 2016
Number of shared co-authors 0
Jie Hou
Saint Louis University
Career Start Year 2015
Number of shared co-authors 1
Renzhi Cao
Pacific Lutheran University
Career Start Year 2013
Number of shared co-authors 2
Wei Zheng
University of Michigan ann arbor
Career Start Year 2013
Number of shared co-authors 0
Chengfei Yan
Huazhong University of Science and Technology
Career Start Year 2013
Number of shared co-authors 0
Ivan Anishchenko
University of Washington
Career Start Year 2009
Number of shared co-authors 0
Zheng Wang
University of Miami
Career Start Year 2009
Number of shared co-authors 2
Li C Xue
Utrecht University
Career Start Year 2008
Number of shared co-authors 0
Jianlin Cheng
University of Missouri
Career Start Year 2005
Number of shared co-authors 3
Jiangning Song
Monash Data Futures Institute, Monash University
Career Start Year 2004
Number of shared co-authors 1
George Karypis
University of Minnesota
Career Start Year 2003
Number of shared co-authors 0
Dina Schneidman-Duhovny
The Hebrew University of Jerusalem
Career Start Year 2003
Number of shared co-authors 0
Dmitry Korkin
Worcester Polytechnic Institute
Career Start Year 2002
Number of shared co-authors 0
Dukka B Kc
Michigan Technological University
Career Start Year 2002
Number of shared co-authors 2
Yang Zhang
University of Michigan ann arbor
Career Start Year 2002
Number of shared co-authors 1
Narcis Fernandez-Fuentes
Institute of Biological, Aberystwyth University
Career Start Year 2002
Number of shared co-authors 0
Lenore J Cowen
Tufts University, 177 College Avenue
Career Start Year 2001
Number of shared co-authors 2
Chaok Seok
Seoul National University
Career Start Year 1998
Number of shared co-authors 1
Daron M Standley
Osaka university
Career Start Year 1998
Number of shared co-authors 1
Dong Xu
University of Missouri
Career Start Year 1998
Number of shared co-authors 2
Daisuke Kihara
Purdue University
Career Start Year 1997
Number of shared co-authors 3
Mallur S Madhusudhan
Indian Institute of Science Education and Research Pune
Career Start Year 1996
Number of shared co-authors 0
Kentaro Tomii
National Institute of Advanced Industrial Science and Technology (AIST)
Career Start Year 1996
Number of shared co-authors 0
Burkhard Rost
Technical University of Munich (TUM)
Career Start Year 1992
Number of shared co-authors 3
Haim J Wolfson
Tel Aviv University
Career Start Year 1991
Number of shared co-authors 0
Baldo Oliva
Universitat Pompeu Fabra
Career Start Year 1991
Number of shared co-authors 2
Ram Samudrala
Jacobs School of Medicine and Biomedical Sciences, University at Buffalo
Career Start Year 1990
Number of shared co-authors 0
Roland L Dunbrack
Fox Chase Cancer Center
Career Start Year 1989
Number of shared co-authors 2

Collaborators

Sheng Wang
University of Texas at Arlington
Co-authored papers 24
Jian Peng
University of Illinois
Co-authored papers 16
Jianzhu Ma
Purdue University
Co-authored papers 9
Bonnie Berger
Massachusetts Institute of Technology
Co-authored papers 8
Xin Gao
King Abdullah University of Science and Technology (KAUST)
Co-authored papers 6
Karl F Freed
University of Chicago
Co-authored papers 4
Tobin R Sosnick
Institute for Biophysical Dynamics, The University of Chicago
Co-authored papers 4
Serafim Batzoglou
Co-authored papers 3
Xiaolin Li
Hangzhou Institute of Medicine, Chinese Academy of Sciences
Co-authored papers 2
Zhen Li
Co-authored papers 2
Jadwiga Bienkowska
Pfizer Global Research and Development La Jolla
Co-authored papers 2
Yanjun Li
University of Florida
Co-authored papers 2
Jack A Kosmicki
Regeneron Pharmaceuticals
Co-authored papers 2
Dongsup Kim
Korea Advanced Institute of Science and Technology
Co-authored papers 2
Gail L Rosen
Drexel University
Co-authored papers 1
Jens S Andersen
University of Southern Denmark
Co-authored papers 1
Anshul Kundaje
Stanford University.
Co-authored papers 1
Christopher B Burge
Co-authored papers 1
Simina M Boca
Georgetown University Medical Center
Co-authored papers 1
David DeCaprio
Broad Institute of Harvard and MIT
Co-authored papers 1
Laura K Wiley
University of Colorado Anschutz Medical Campus
Co-authored papers 1
Alejandro Valenzuela
Co-authored papers 1
Daniel S Himmelstein
University of Pennsylvania
Co-authored papers 1
Anthony Gitter
University of Wisconsin
Co-authored papers 1
Anne O'Donnell-Luria
Broad Institute of MIT and Harvard
Co-authored papers 1
Monkol Lek
Co-authored papers 1
Norbert Perrimon
Co-authored papers 1
Moriel Singer-Berk
Co-authored papers 1
Evan M Cofer
Lewis-Sigler Institute for Integrative Genomics, Princeton University
Co-authored papers 1
Tobias Hamp
Inc. San Diego
Co-authored papers 1
Release 1.2