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2020 – today
- 2023
[c19]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: 104:1-104:5- [c18]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: 1004-1007 - [c17]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: 1806-1811 - [c16]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: 681-691 - 2022
- [j11]Brian Y. Chen, William Bone, Kim Lorenz, Michael Levin, Marylyn D. Ritchie, Benjamin F. Voight:
ColocQuiaL: a QTL-GWAS colocalization pipeline. Bioinform. 38(18): 4409-4411 (2022) - [c15]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: 469-478 - 2021
- [c14]Chesphongphach Buranasilp, Brian Y. Chen:
A Conical Representation of Hydrogen Bond Geometry for Quantifying Bond Interactions. BIBM 2021: 2479-2486 - [c13]Justin Z. Tam, Talulla Palumbo, Julie M. Miwa, Brian Y. Chen:
DiffBond: A Method for Predicting Intermolecular Bond Formation. BIBM 2021: 2574-2586 - 2020
- [j10]Georgi D. Georgiev, Kevin F. Dodd, Brian Y. Chen:
Precise parallel volumetric comparison of molecular surfaces and electrostatic isopotentials. Algorithms Mol. Biol. 15(1): 11 (2020)
2010 – 2019
- 2019
- [c12]Jinbu Wang, Brian Y. Chen:
On Conformations of Peptides Bound to Class I Major Histocompatibility Complexes. BCB 2019: 604-610 - [c11]Devan Bicher, Brian Y. Chen:
A Volumetric Survey of Cavities and Electrostatic Patterns in Protein-RNA Binding Sites. BCB 2019: 611-617 - [c10]Georgi D. Georgiev, Kevin F. Dodd, Brian Y. Chen:
pClay: A Precise Parallel Algorithm for Comparing Molecular Surfaces. WABI 2019: 6:1-6:13 - 2018
- [c9]Filip Jagodzinski, Brian Y. Chen, Kevin Molloy:
ACM-BCB 2018 Computational Structural Bioinformatics Workshop (CSBW) Chairs' Welcome. BCB 2018: 613-614 - [c8]Jinbu Wang, Brian Y. Chen:
MAPS: Analyzing Peptide Binding Subsites in Major Histocompatibility Complexes. BCB 2018: 656-662 - 2017
- [j9]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): 68-78 (2017) - [c7]Stephanie Mason, Tim Woods, Brian Y. Chen, Filip Jagodzinski:
Investigating Rigidity Properties of Protein Cavities. BCB 2017: 698-703 - 2014
- [j8]Brian Y. Chen:
VASP-E: Specificity Annotation with a Volumetric Analysis of Electrostatic Isopotentials. PLoS Comput. Biol. 10(8) (2014) - 2012
- [c6]Brian Y. Chen, Debdas Paul:
A volumetric method for representing and comparing regions of electrostatic focusing in molecular structure. BCB 2012: 242-249 - [c5]Brian G. Godshall, Brian Y. Chen:
Improving accuracy in binding site comparison with homology modeling. BIBM Workshops 2012: 662-669 - 2011
- [j7]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): 357-361 (2011) - 2010
- [j6]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: 242 (2010) - [j5]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)
2000 – 2009
- 2008
- [j4]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) - 2007
- [j3]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): 353-382 (2007) - [j2]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): 791-816 (2007) - 2006
- [c4]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: 500-515 - 2005
- [j1]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): 597-608 (2005) - [c3]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 - 2003
- [c2]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: 656-661 - [c1]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: 80-89
Coauthor Index
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