Brian Y. Chen

Publication Activity (10 Years)

Years Active: 2003-2023
Publications (10 Years): 16

Top Topics

Disease Diagnosis

Drosophila Melanogaster

Top Venues

J. Comput. Biol.

Publications

Rong Zhou, Houliang Zhou, Brian Y. Chen, Li Shen, Yu Zhang, Lifang He
Attentive Deep Canonical Correlation Analysis for Diagnosing Alzheimer's Disease Using Multimodal Imaging Genetics. MICCAI (2) (2023)
Houliang Zhou, Yu Zhang, Lifang He, Li Shen, Brian Y. Chen
Interpretable Graph Convolutional Network for Alzheimer's Disease Diagnosis using Multi-Modal Imaging Genetics. BIBM (2023)
Rong Zhou, Houliang Zhou, Li Shen, Brian Y. Chen, Yu Zhang, Lifang He
Integrating Multimodal Contrastive Learning and Cross-Modal Attention for Alzheimer's Disease Prediction in Brain Imaging Genetics. BIBM (2023)
Justin Z. Tam, Alexandra Chua, Adyn Gallagher, Denice Omene, Danielle Okun, Dominic DiFranzo, Brian Y. Chen
A Containerization Framework for Bioinformatics Software to Advance Scalability, Portability, and Maintainability. BCB (2023)
Houliang Zhou, Yu Zhang, Brian Y. Chen, Li Shen, Lifang He
Sparse Interpretation of Graph Convolutional Networks for Multi-modal Diagnosis of Alzheimer's Disease. MICCAI (8) (2022)
Brian Y. Chen, William Bone, Kim Lorenz, Michael Levin, Marylyn D. Ritchie, Benjamin F. Voight
ColocQuiaL: a QTL-GWAS colocalization pipeline. Bioinform. 38 (18) (2022)
Chesphongphach Buranasilp, Brian Y. Chen
A Conical Representation of Hydrogen Bond Geometry for Quantifying Bond Interactions. BIBM (2021)
Justin Tam, Talulla Palumbo, Julie M. Miwa, Brian Y. Chen
DiffBond: A Method for Predicting Intermolecular Bond Formation. BIBM (2021)
Georgi D. Georgiev, Kevin F. Dodd, Brian Y. Chen
Precise parallel volumetric comparison of molecular surfaces and electrostatic isopotentials. Algorithms Mol. Biol. 15 (1) (2020)
Devan Bicher, Brian Y. Chen
A Volumetric Survey of Cavities and Electrostatic Patterns in Protein-RNA Binding Sites. BCB (2019)
Georgi D. Georgiev, Kevin F. Dodd, Brian Y. Chen
pClay: A Precise Parallel Algorithm for Comparing Molecular Surfaces. WABI (2019)
Jinbu Wang, Brian Y. Chen
On Conformations of Peptides Bound to Class I Major Histocompatibility Complexes. BCB (2019)
Filip Jagodzinski, Brian Y. Chen, Kevin Molloy
ACM-BCB 2018 Computational Structural Bioinformatics Workshop (CSBW) Chairs' Welcome. BCB (2018)
Jinbu Wang, Brian Y. Chen
MAPS: Analyzing Peptide Binding Subsites in Major Histocompatibility Complexes. BCB (2018)
Stephanie Mason, Tim Woods, Brian Y. Chen, Filip Jagodzinski
Investigating Rigidity Properties of Protein Cavities. BCB (2017)
Bridget E. Nolan, Emily Levenson, Brian Y. Chen
Influential Mutations in the SMAD4 Trimer Complex Can Be Detected from Disruptions of Electrostatic Complementarity. J. Comput. Biol. 24 (1) (2017)
Brian Y. Chen
VASP-E: Specificity Annotation with a Volumetric Analysis of Electrostatic Isopotentials. PLoS Comput. Biol. 10 (8) (2014)
Brian G. Godshall, Brian Y. Chen
Improving accuracy in binding site comparison with homology modeling. BIBM Workshops (2012)
Brian Y. Chen, Debdas Paul
A volumetric method for representing and comparing regions of electrostatic focusing in molecular structure. BCB (2012)
Markus Fischer, Qiangfeng Cliff Zhang, Fabian Dey, Brian Y. Chen, Barry Honig, Donald Petrey
MarkUs: a server to navigate sequence-structure-function space. Nucleic Acids Res. 39 (Web-Server-Issue) (2011)
Brian Y. Chen, Barry Honig
VASP: A Volumetric Analysis of Surface Properties Yields Insights into Protein-Ligand Binding Specificity. PLoS Comput. Biol. 6 (8) (2010)
Drew H. Bryant, Mark Moll, Brian Y. Chen, Viacheslav Fofanov, Lydia E. Kavraki
Analysis of substructural variation in families of enzymatic proteins with applications to protein function prediction. BMC Bioinform. 11 (2010)
David M. Kristensen, R. Matthew Ward, Andreas Martin Lisewski, Serkan Erdin, Brian Y. Chen, Viacheslav Fofanov, Marek Kimmel, Lydia E. Kavraki, Olivier Lichtarge
Prediction of enzyme function based on 3D templates of evolutionarily important amino acids. BMC Bioinform. 9 (2008)
Brian Y. Chen, Drew H. Bryant, Viacheslav Fofanov, David M. Kristensen, Amanda E. Cruess, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
Cavity Scaling: Automated Refinement of Cavity-Aware motifs in protein Function Prediction. J. Bioinform. Comput. Biol. 5 (2a) (2007)
Brian Y. Chen, Viacheslav Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
The MASH Pipeline for Protein Function Prediction and an Algorithm for the Geometric Refinement of 3D Motifs. J. Comput. Biol. 14 (6) (2007)
Brian Y. Chen, Viacheslav Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
Geometric Sieving: Automated Distributed Optimization of 3D Motifs for Protein Function Prediction. RECOMB (2006)
Brian Y. Chen, Viacheslav Fofanov, David M. Kristensen, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
Algorithms for Structural Comparison and Statistical Analysis of 3D Protein Motifs. Pacific Symposium on Biocomputing (2005)
Erion Plaku, Kostas E. Bekris, Brian Y. Chen, Andrew M. Ladd, Lydia E. Kavraki
Sampling-Based Roadmap of Trees for Parallel Motion Planning. IEEE Trans. Robotics 21 (4) (2005)
Kostas E. Bekris, Brian Y. Chen, Andrew M. Ladd, Erion Plaku, Lydia E. Kavraki
Multiple query probabilistic roadmap planning using single query planning primitives. IROS (2003)
Mert Akinc, Kostas E. Bekris, Brian Y. Chen, Andrew M. Ladd, Erion Plaku, Lydia E. Kavraki
Probabilistic Roadmaps of Trees for Parallel Computation of Multiple Query Roadmaps. ISRR (2003)