Chris Bailey-Kellogg

65 papers A* 1A 2B 9C 2Misc 1Journal 37Unranked 10
YearRankTypeTitle / Venue / Authors
2021 — conf
A multi-resolution graph convolution network for contiguous epitope prediction.
BCB
Lisa Oh, Bowen Dai, Chris Bailey-Kellogg
2021 J jnl
Building blocks and blueprints for bacterial autolysins.
PLoS Comput. Biol.
Spencer J. Mitchell, Deeptak Verma, Karl E. Griswold, Chris Bailey-Kellogg
2021 J jnl
Comprehensive analysis of lectin-glycan interactions reveals determinants of lectin specificity.
PLoS Comput. Biol.
Daniel E. Mattox, Chris Bailey-Kellogg
2021 J jnl
MHCEpitopeEnergy, a Flexible Rosetta-Based Biotherapeutic Deimmunization Platform.
J. Chem. Inf. Model.
Brahm J. Yachnin, Vikram Khipple Mulligan, Sagar D. Khare, Chris Bailey-Kellogg
2021 J jnl
Protein interaction interface region prediction by geometric deep learning.
Bioinform.
Bowen Dai, Chris Bailey-Kellogg
2020 J jnl
Computer-guided binding mode identification and affinity improvement of an LRR protein binder without structure determination.
PLoS Comput. Biol.
Yoonjoo Choi, Sukyo Jeong, Jung-Min Choi, Christian NDong, Karl E. Griswold, Chris Bailey-Kellogg, Hak-Sung Kim
2020 J jnl
Learning context-aware structural representations to predict antigen and antibody binding interfaces.
Bioinform.
Srivamshi Pittala, Chris Bailey-Kellogg
2019 J jnl
Balancing sensitivity and specificity in distinguishing TCR groups by CDR sequence similarity.
BMC Bioinform.
Neerja Thakkar, Chris Bailey-Kellogg
2019 J jnl
Pareto Optimization of Combinatorial Mutagenesis Libraries.
IEEE ACM Trans. Comput. Biol. Bioinform.
Deeptak Verma, Gevorg Grigoryan, Chris Bailey-Kellogg
2018 J jnl
DisruPPI: structure-based computational redesign algorithm for protein binding disruption.
Bioinform.
Yoonjoo Choi, Jacob M. Furlon, Ryan B. Amos, Karl E. Griswold, Chris Bailey-Kellogg
2017 — ch.
Gaussian Process Models in Spatial Data Mining.
Encyclopedia of GIS
Naren Ramakrishnan, Chris Bailey-Kellogg
2016 — conf
OCoM-SOCoM: Combinatorial Mutagenesis Library Design Optimally Combining Sequence and Structure Information.
BCB
Deeptak Verma, Gevorg Grigoryan, Chris Bailey-Kellogg
2015 J jnl
Development and validation of an epitope prediction tool for swine (PigMatrix) based on the pocket profile method.
BMC Bioinform.
Andres H. Gutiérrez, William D. Martin, Chris Bailey-Kellogg, Frances Terry, Leonard Moise, Anne S. De Groot
2015 J jnl
Learning Sequence Determinants of Protein: Protein Interaction Specificity with Sparse Graphical Models.
J. Comput. Biol.
Hetunandan Kamisetty, Bornika Ghosh, Christopher James Langmead, Chris Bailey-Kellogg
2015 J jnl
Machine Learning Methods Enable Predictive Modeling of Antibody Feature: Function Relationships in RV144 Vaccinees.
PLoS Comput. Biol.
Ickwon Choi, Amy W. Chung, Todd J. Suscovich, Supachai Rerks-Ngarm, Punnee Pitisuttithum, Sorachai Nitayaphan, Jaranit Kaewkungwal, Robert J. O'Connell, Donald Francis, Merlin L. Robb, Nelson Michael, Jerome H. Kim, Galit Alter, Margaret E. Ackerman, Chris Bailey-Kellogg
2015 J jnl
Mapping the Pareto Optimal Design Space for a Functionally Deimmunized Biotherapeutic Candidate.
PLoS Comput. Biol.
Regina S. Salvat, Andrew S. Parker, Yoonjoo Choi, Chris Bailey-Kellogg, Karl E. Griswold
2014 J jnl
Integrated assessment of predicted MHC binding and cross-conservation with self reveals patterns of viral camouflage.
BMC Bioinform.
Lu He, Anne S. De Groot, Andres H. Gutiérrez, William D. Martin, Lenny Moise, Chris Bailey-Kellogg
2014 B conf
Learning Sequence Determinants of Protein: Protein Interaction Specificity with Sparse Graphical Models.
RECOMB
Hetunandan Kamisetty, Bornika Ghosh, Christopher James Langmead, Chris Bailey-Kellogg
2013 J jnl
Ballast: A Ball-based Algorithm for Structural Motifs.
J. Comput. Biol.
Lu He, Fabio Vandin, Gopal Pandurangan, Chris Bailey-Kellogg
2013 J jnl
Improved Multiple Sequence Alignments Using Coupled Pattern Mining.
IEEE ACM Trans. Comput. Biol. Bioinform.
K. S. M. Tozammel Hossain, Debprakash Patnaik, Srivatsan Laxman, Prateek Jain, Chris Bailey-Kellogg, Naren Ramakrishnan
2013 — conf
Simultaneous determination of subunit and complex structures of symmetric homo-oligomers from ambiguous NMR data.
BCB
Himanshu Chandola, Bruce Randall Donald, Chris Bailey-Kellogg
2013 J jnl
Structure-Guided Deimmunization of Therapeutic Proteins.
J. Comput. Biol.
Andrew S. Parker, Yoonjoo Choi, Karl E. Griswold, Chris Bailey-Kellogg
2013 J jnl
Structure-based redesign of proteins for minimal T-cell epitope content.
J. Comput. Chem.
Yoonjoo Choi, Karl E. Griswold, Chris Bailey-Kellogg
2012 J jnl
Algorithms for optimizing cross-overs in DNA shuffling.
BMC Bioinform.
Lu He, Alan M. Friedman, Chris Bailey-Kellogg
2012 B conf
Ballast: A Ball-Based Algorithm for Structural Motifs.
RECOMB
Lu He, Fabio Vandin, Gopal Pandurangan, Chris Bailey-Kellogg
2012 — conf
Immunoinformatic analysis of Chinese hamster ovary (CHO) protein contaminants in therapeutic protein formulations.
BCB
Andres H. Gutiérrez, Leonard Moise, Frances Terry, Kristen Dasilva, Chris Bailey-Kellogg, William D. Martin, Anne S. De Groot
2012 — conf
Improved multiple sequence alignments using coupled pattern mining.
BCB
K. S. M. Tozammel Hossain, Debprakash Patnaik, Srivatsan Laxman, Prateek Jain, Chris Bailey-Kellogg, Naren Ramakrishnan
2012 J jnl
MMFPh: a maximal motif finder for phosphoproteomics datasets.
Bioinform.
Tuobin Wang, Arminja N. Kettenbach, Scott A. Gerber, Chris Bailey-Kellogg
2012 J jnl
Response to 'Comments on "MMFPh: A Maximal Motif Finder for Phosphoproteomics Datasets"'.
Bioinform.
Tuobin Wang, Arminja N. Kettenbach, Scott A. Gerber, Chris Bailey-Kellogg
2012 B conf
Structure-Guided Deimmunization of Therapeutic Proteins.
RECOMB
Andrew S. Parker, Karl E. Griswold, Chris Bailey-Kellogg
2011 J jnl
A Geometric Arrangement Algorithm for Structure Determination of Symmetric Protein Homo-Oligomers from NOEs and RDCs.
J. Comput. Biol.
Jeffrey W. Martin, Anthony K. Yan, Chris Bailey-Kellogg, Pei Zhou, Bruce Randall Donald
2011 B conf
A Geometric Arrangement Algorithm for Structure Determination of Symmetric Protein Homo-oligomers from NOEs and RDCs.
RECOMB
Jeffrey W. Martin, Anthony K. Yan, Chris Bailey-Kellogg, Pei Zhou, Bruce Randall Donald
2011 — conf
Algorithms for optimizing cross-overs in DNA shuffling.
BCB
Lu He, Alan M. Friedman, Chris Bailey-Kellogg
2011 J jnl
NMR Structural Inference of Symmetric Homo-Oligomers.
J. Comput. Biol.
Himanshu Chandola, Anthony K. Yan, Shobha Potluri, Bruce Randall Donald, Chris Bailey-Kellogg
2011 B conf
Optimization of Combinatorial Mutagenesis.
RECOMB
Andrew S. Parker, Karl E. Griswold, Chris Bailey-Kellogg
2011 J jnl
Optimization of Combinatorial Mutagenesis.
J. Comput. Biol.
Andrew S. Parker, Karl E. Griswold, Chris Bailey-Kellogg
2011 J jnl
Optimization of Therapeutic proteins to Delete T-Cell epitopes while Maintaining Beneficial Residue Interactions.
J. Bioinform. Comput. Biol.
Andrew S. Parker, Karl E. Griswold, Chris Bailey-Kellogg
2011 J jnl
Planning combinatorial disulfide cross-links for protein fold determination.
BMC Bioinform.
Fei Xiong, Alan M. Friedman, Chris Bailey-Kellogg
2011 — conf
Using physicochemical properties of amino acids to induce graphical models of residue couplings.
BIOKDD
K. S. M. Tozammel Hossain, Chris Bailey-Kellogg, Alan M. Friedman, Michael J. Bradley, Nathan A. Baker, Naren Ramakrishnan
2010 J jnl
Characterizing the Space of interatomic Distance Distribution Functions Consistent with Solution Scattering Data.
J. Bioinform. Comput. Biol.
Paritosh A. Kavathekar, Bruce A. Craig, Alan M. Friedman, Chris Bailey-Kellogg, Devin J. Balkcom
2010 J jnl
Optimization algorithms for functional deimmunization of therapeutic proteins.
BMC Bioinform.
Andrew S. Parker, Wei Zheng, Karl E. Griswold, Chris Bailey-Kellogg
2010 J jnl
Protein Fragment Swapping: A Method for Asymmetric, Selective Site-Directed Recombination.
J. Comput. Biol.
Wei Zheng, Karl E. Griswold, Chris Bailey-Kellogg
2009 J jnl
Algorithms for Joint Optimization of Stability and Diversity in Planning Combinatorial Libraries of Chimeric Proteins.
J. Comput. Biol.
Wei Zheng, Alan M. Friedman, Chris Bailey-Kellogg
2009 J jnl
Protein Design by Sampling an Undirected Graphical Model of Residue Constraints.
IEEE ACM Trans. Comput. Biol. Bioinform.
John Thomas, Naren Ramakrishnan, Chris Bailey-Kellogg
2009 B conf
Protein Fragment Swapping: A Method for Asymmetric, Selective Site-Directed Recombination.
RECOMB
Wei Zheng, Karl E. Griswold, Chris Bailey-Kellogg
2008 B conf
Algorithms for Joint Optimization of Stability and Diversity in Planning Combinatorial Libraries of Chimeric Proteins.
RECOMB
Wei Zheng, Alan M. Friedman, Chris Bailey-Kellogg
2008 A conf
Contact replacement for NMR resonance assignment.
ISMB
Fei Xiong, Gopal Pandurangan, Chris Bailey-Kellogg
2008 — ch.
Gaussian Process Models in Spatial Data Mining.
Encyclopedia of GIS
Naren Ramakrishnan, Chris Bailey-Kellogg
2008 J jnl
Graphical Models of Residue Coupling in Protein Families.
IEEE ACM Trans. Comput. Biol. Bioinform.
John Thomas, Naren Ramakrishnan, Chris Bailey-Kellogg
2007 C conf
A Hierarchical Grow-and-Match Algorithm for Backbone Resonance Assignments Given 3D Structure.
BIBE
Fei Xiong, Chris Bailey-Kellogg
2007 J jnl
Hypergraph Model of Multi-Residue Interactions in Proteins: Sequentially-Constrained Partitioning Algorithms for Optimization of Site-Directed Protein Recombination.
J. Comput. Biol.
Xiaoduan Ye, Alan M. Friedman, Chris Bailey-Kellogg
2007 — ch.
Structure Discovery from Massive Spatial Data Sets Using Intelligent Simulation Tools.
Computational Discovery of Scientific Knowledge
Feng Zhao, Chris Bailey-Kellogg, Xingang Huang, Iván Ordóñez
2006 J jnl
An efficient randomized algorithm for contact-based NMR backbone resonance assignment.
Bioinform.
Hetunandan Kamisetty, Chris Bailey-Kellogg, Gopal Pandurangan
2006 C conf
Extended Abstract: Structure Determination of Symmetric Protein Complexes by a Complete Search of Symmetry Configuration Space Using NMR Distance Restraints.
WAFR
Shobha Potluri, Anthony K. Yan, James J. Chou, Bruce Randall Donald, Chris Bailey-Kellogg
2006 B conf
Hypergraph Model of Multi-residue Interactions in Proteins: Sequentially-Constrained Partitioning Algorithms for Optimization of Site-Directed Protein Recombination.
RECOMB
Xiaoduan Ye, Alan M. Friedman, Chris Bailey-Kellogg
2006 J jnl
Spatial data mining to support pandemic preparedness.
SIGKDD Explor.
Chris Bailey-Kellogg, Naren Ramakrishnan, Madhav V. Marathe
2005 J jnl
A Random Graph Approach to NMR Sequential Assignment.
J. Comput. Biol.
Chris Bailey-Kellogg, Sheetal Chainraj, Gopal Pandurangan
2005 A conf
Gaussian Processes for Active Data Mining of Spatial Aggregates.
SDM
Naren Ramakrishnan, Chris Bailey-Kellogg, Satish Tadepalli, Varun Pandey
2005 — conf
Graphical models of residue coupling in protein families.
BIOKDD
John Thomas, Naren Ramakrishnan, Chris Bailey-Kellogg
2005 — conf
Reconsidering complete search algorithms for protein backbone NMR assignment.
ECCB/JBI
Olga Vitek, Chris Bailey-Kellogg, Bruce A. Craig, Paul Kuliniewicz, Jan Vitek
2004 B conf
A random graph approach to NMR sequential assignment.
RECOMB
Chris Bailey-Kellogg, Sheetal Chainraj, Gopal Pandurangan
2004 Misc conf
Geometric Analysis of Cross-Linkability for Protein Fold Discrimination.
Pacific Symposium on Biocomputing
Shobha Potluri, Aly Azeem Khan, A. Kuzminykh, Janusz M. Bujnicki, Alan M. Friedman, Chris Bailey-Kellogg
2004 A* conf
Spatial Aggregation for Qualitative Assessment of Scientific Computations.
AAAI
Chris Bailey-Kellogg, Naren Ramakrishnan
2003 — conf
Service Learning in Software Engineering and Maintenance.
ICSM
Panagiotis K. Linos, Chris Bailey-Kellogg
2002 J jnl
Sampling strategies for mining in data-scarce domains.
Comput. Sci. Eng.
Naren Ramakrishnan, Chris Bailey-Kellogg