Chris Bailey-Kellogg

Publication Activity (10 Years)

Years Active: 2002-2021
Publications (10 Years): 11

Top Topics

Protein Interaction

Machine Learning Methods

Complex Structures

Structural Motifs

Top Venues

PLoS Comput. Biol.

Publications

Lisa Oh, Bowen Dai, Chris Bailey-Kellogg
A multi-resolution graph convolution network for contiguous epitope prediction. BCB (2021)
Bowen Dai, Chris Bailey-Kellogg
Protein interaction interface region prediction by geometric deep learning. Bioinform. 37 (17) (2021)
Brahm J. Yachnin, Vikram Khipple Mulligan, Sagar D. Khare, Chris Bailey-Kellogg
MHCEpitopeEnergy, a Flexible Rosetta-Based Biotherapeutic Deimmunization Platform. J. Chem. Inf. Model. 61 (5) (2021)
Spencer J. Mitchell, Deeptak Verma, Karl E. Griswold, Chris Bailey-Kellogg
Building blocks and blueprints for bacterial autolysins. PLoS Comput. Biol. 17 (4) (2021)
Daniel E. Mattox, Chris Bailey-Kellogg
Comprehensive analysis of lectin-glycan interactions reveals determinants of lectin specificity. PLoS Comput. Biol. 17 (10) (2021)
Srivamshi Pittala, Chris Bailey-Kellogg
Learning context-aware structural representations to predict antigen and antibody binding interfaces. Bioinform. 36 (13) (2020)
Yoonjoo Choi, Sukyo Jeong, Jung-Min Choi, Christian NDong, Karl E. Griswold, Chris Bailey-Kellogg, Hak-Sung Kim
Computer-guided binding mode identification and affinity improvement of an LRR protein binder without structure determination. PLoS Comput. Biol. 16 (8) (2020)
Deeptak Verma, Gevorg Grigoryan, Chris Bailey-Kellogg
Pareto Optimization of Combinatorial Mutagenesis Libraries. IEEE ACM Trans. Comput. Biol. Bioinform. 16 (4) (2019)
Neerja Thakkar, Chris Bailey-Kellogg
Balancing sensitivity and specificity in distinguishing TCR groups by CDR sequence similarity. BMC Bioinform. 20 (1) (2019)
Yoonjoo Choi, Jacob M. Furlon, Ryan B. Amos, Karl E. Griswold, Chris Bailey-Kellogg
DisruPPI: structure-based computational redesign algorithm for protein binding disruption. Bioinform. 34 (13) (2018)
Deeptak Verma, Gevorg Grigoryan, Chris Bailey-Kellogg
OCoM-SOCoM: Combinatorial Mutagenesis Library Design Optimally Combining Sequence and Structure Information. BCB (2016)
Hetunandan Kamisetty, Bornika Ghosh, Christopher James Langmead, Chris Bailey-Kellogg
Learning Sequence Determinants of Protein: Protein Interaction Specificity with Sparse Graphical Models. J. Comput. Biol. 22 (6) (2015)
Regina S. Salvat, Andrew S. Parker, Yoonjoo Choi, Chris Bailey-Kellogg, Karl E. Griswold
Mapping the Pareto Optimal Design Space for a Functionally Deimmunized Biotherapeutic Candidate. PLoS Comput. Biol. 11 (1) (2015)
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
Machine Learning Methods Enable Predictive Modeling of Antibody Feature: Function Relationships in RV144 Vaccinees. PLoS Comput. Biol. 11 (4) (2015)
Andres H. Gutiérrez, William D. Martin, Chris Bailey-Kellogg, Frances Terry, Leonard Moise, Anne S. De Groot
Development and validation of an epitope prediction tool for swine (PigMatrix) based on the pocket profile method. BMC Bioinform. 16 (2015)
Lu He, Anne S. De Groot, Andres H. Gutiérrez, William D. Martin, Lenny Moise, Chris Bailey-Kellogg
Integrated assessment of predicted MHC binding and cross-conservation with self reveals patterns of viral camouflage. BMC Bioinform. 15 (S-4) (2014)
Hetunandan Kamisetty, Bornika Ghosh, Christopher James Langmead, Chris Bailey-Kellogg
Learning Sequence Determinants of Protein: Protein Interaction Specificity with Sparse Graphical Models. RECOMB (2014)
Andrew S. Parker, Yoonjoo Choi, Karl E. Griswold, Chris Bailey-Kellogg
Structure-Guided Deimmunization of Therapeutic Proteins. J. Comput. Biol. 20 (2) (2013)
K. S. M. Tozammel Hossain, Debprakash Patnaik, Srivatsan Laxman, Prateek Jain, Chris Bailey-Kellogg, Naren Ramakrishnan
Improved Multiple Sequence Alignments Using Coupled Pattern Mining. IEEE ACM Trans. Comput. Biol. Bioinform. 10 (5) (2013)
Himanshu Chandola, Bruce Randall Donald, Chris Bailey-Kellogg
Simultaneous determination of subunit and complex structures of symmetric homo-oligomers from ambiguous NMR data. BCB (2013)
Yoonjoo Choi, Karl E. Griswold, Chris Bailey-Kellogg
Structure-based redesign of proteins for minimal T-cell epitope content. J. Comput. Chem. 34 (10) (2013)
Lu He, Fabio Vandin, Gopal Pandurangan, Chris Bailey-Kellogg
Ballast: A Ball-based Algorithm for Structural Motifs. J. Comput. Biol. 20 (2) (2013)
Andrew S. Parker, Karl E. Griswold, Chris Bailey-Kellogg
Structure-Guided Deimmunization of Therapeutic Proteins. RECOMB (2012)
Tuobin Wang, Arminja N. Kettenbach, Scott A. Gerber, Chris Bailey-Kellogg
Response to 'Comments on "MMFPh: A Maximal Motif Finder for Phosphoproteomics Datasets"'. Bioinform. 28 (16) (2012)
Lu He, Alan M. Friedman, Chris Bailey-Kellogg
Algorithms for optimizing cross-overs in DNA shuffling. BMC Bioinform. 13 (S-3) (2012)
Lu He, Fabio Vandin, Gopal Pandurangan, Chris Bailey-Kellogg
Ballast: A Ball-Based Algorithm for Structural Motifs. RECOMB (2012)
Tuobin Wang, Arminja N. Kettenbach, Scott A. Gerber, Chris Bailey-Kellogg
MMFPh: a maximal motif finder for phosphoproteomics datasets. Bioinform. 28 (12) (2012)
Andres H. Gutiérrez, Leonard Moise, Frances Terry, Kristen Dasilva, Chris Bailey-Kellogg, William D. Martin, Anne S. De Groot
Immunoinformatic analysis of Chinese hamster ovary (CHO) protein contaminants in therapeutic protein formulations. BCB (2012)
K. S. M. Tozammel Hossain, Debprakash Patnaik, Srivatsan Laxman, Prateek Jain, Chris Bailey-Kellogg, Naren Ramakrishnan
Improved multiple sequence alignments using coupled pattern mining. BCB (2012)
Andrew S. Parker, Karl E. Griswold, Chris Bailey-Kellogg
Optimization of Combinatorial Mutagenesis. RECOMB (2011)
Andrew S. Parker, Karl E. Griswold, Chris Bailey-Kellogg
Optimization of Combinatorial Mutagenesis. J. Comput. Biol. 18 (11) (2011)
Lu He, Alan M. Friedman, Chris Bailey-Kellogg
Algorithms for optimizing cross-overs in DNA shuffling. BCB (2011)
Jeffrey W. Martin, Anthony K. Yan, Chris Bailey-Kellogg, Pei Zhou, Bruce Randall Donald
A Geometric Arrangement Algorithm for Structure Determination of Symmetric Protein Homo-oligomers from NOEs and RDCs. RECOMB (2011)
Jeffrey W. Martin, Anthony K. Yan, Chris Bailey-Kellogg, Pei Zhou, Bruce Randall Donald
A Geometric Arrangement Algorithm for Structure Determination of Symmetric Protein Homo-Oligomers from NOEs and RDCs. J. Comput. Biol. 18 (11) (2011)
K. S. M. Tozammel Hossain, Chris Bailey-Kellogg, Alan M. Friedman, Michael J. Bradley, Nathan Baker, Naren Ramakrishnan
Using physicochemical properties of amino acids to induce graphical models of residue couplings. BIOKDD (2011)
Fei Xiong, Alan M. Friedman, Chris Bailey-Kellogg
Planning combinatorial disulfide cross-links for protein fold determination. BMC Bioinform. 12 (S-12) (2011)
Andrew S. Parker, Karl E. Griswold, Chris Bailey-Kellogg
Optimization of Therapeutic proteins to Delete T-Cell epitopes while Maintaining Beneficial Residue Interactions. J. Bioinform. Comput. Biol. 9 (2) (2011)
Himanshu Chandola, Anthony K. Yan, Shobha Potluri, Bruce Randall Donald, Chris Bailey-Kellogg
NMR Structural Inference of Symmetric Homo-Oligomers. J. Comput. Biol. 18 (12) (2011)
Andrew S. Parker, Wei Zheng, Karl E. Griswold, Chris Bailey-Kellogg
Optimization algorithms for functional deimmunization of therapeutic proteins. BMC Bioinform. 11 (2010)
Paritosh A. Kavathekar, Bruce A. Craig, Alan M. Friedman, Chris Bailey-Kellogg, Devin J. Balkcom
Characterizing the Space of interatomic Distance Distribution Functions Consistent with Solution Scattering Data. J. Bioinform. Comput. Biol. 8 (2) (2010)
Wei Zheng, Karl E. Griswold, Chris Bailey-Kellogg
Protein Fragment Swapping: A Method for Asymmetric, Selective Site-Directed Recombination. J. Comput. Biol. 17 (3) (2010)
Wei Zheng, Alan M. Friedman, Chris Bailey-Kellogg
Algorithms for Joint Optimization of Stability and Diversity in Planning Combinatorial Libraries of Chimeric Proteins. J. Comput. Biol. 16 (8) (2009)
John Thomas, Naren Ramakrishnan, Chris Bailey-Kellogg
Protein Design by Sampling an Undirected Graphical Model of Residue Constraints. IEEE ACM Trans. Comput. Biol. Bioinform. 6 (3) (2009)
Wei Zheng, Karl E. Griswold, Chris Bailey-Kellogg
Protein Fragment Swapping: A Method for Asymmetric, Selective Site-Directed Recombination. RECOMB (2009)
Wei Zheng, Alan M. Friedman, Chris Bailey-Kellogg
Algorithms for Joint Optimization of Stability and Diversity in Planning Combinatorial Libraries of Chimeric Proteins. RECOMB (2008)
John Thomas, Naren Ramakrishnan, Chris Bailey-Kellogg
Graphical Models of Residue Coupling in Protein Families. IEEE ACM Trans. Comput. Biol. Bioinform. 5 (2) (2008)
Fei Xiong, Gopal Pandurangan, Chris Bailey-Kellogg
Contact replacement for NMR resonance assignment. ISMB (2008)
Fei Xiong, Chris Bailey-Kellogg
A Hierarchical Grow-and-Match Algorithm for Backbone Resonance Assignments Given 3D Structure. BIBE (2007)
Xiaoduan Ye, Alan M. Friedman, Chris Bailey-Kellogg
Hypergraph Model of Multi-Residue Interactions in Proteins: Sequentially-Constrained Partitioning Algorithms for Optimization of Site-Directed Protein Recombination. J. Comput. Biol. 14 (6) (2007)
Shobha Potluri, Anthony K. Yan, James J. Chou, Bruce Randall Donald, Chris Bailey-Kellogg
Extended Abstract: Structure Determination of Symmetric Protein Complexes by a Complete Search of Symmetry Configuration Space Using NMR Distance Restraints. WAFR (2006)
Hetunandan Kamisetty, Chris Bailey-Kellogg, Gopal Pandurangan
An efficient randomized algorithm for contact-based NMR backbone resonance assignment. Bioinform. 22 (2) (2006)
Chris Bailey-Kellogg, Naren Ramakrishnan, Madhav V. Marathe
Spatial data mining to support pandemic preparedness. SIGKDD Explor. 8 (1) (2006)
Xiaoduan Ye, Alan M. Friedman, Chris Bailey-Kellogg
Hypergraph Model of Multi-residue Interactions in Proteins: Sequentially-Constrained Partitioning Algorithms for Optimization of Site-Directed Protein Recombination. RECOMB (2006)
John Thomas, Naren Ramakrishnan, Chris Bailey-Kellogg
Graphical models of residue coupling in protein families. BIOKDD (2005)
Olga Vitek, Chris Bailey-Kellogg, Bruce A. Craig, Paul Kuliniewicz, Jan Vitek
Reconsidering complete search algorithms for protein backbone NMR assignment. ECCB/JBI (2005)
Chris Bailey-Kellogg, Sheetal Chainraj, Gopal Pandurangan
A Random Graph Approach to NMR Sequential Assignment. J. Comput. Biol. 12 (6) (2005)
Naren Ramakrishnan, Chris Bailey-Kellogg, Satish Tadepalli, Varun Pandey
Gaussian Processes for Active Data Mining of Spatial Aggregates. SDM (2005)
Chris Bailey-Kellogg, Naren Ramakrishnan
Spatial Aggregation for Qualitative Assessment of Scientific Computations. AAAI (2004)
Shobha Potluri, Aly Azeem Khan, A. Kuzminykh, Janusz M. Bujnicki, Alan M. Friedman, Chris Bailey-Kellogg
Geometric Analysis of Cross-Linkability for Protein Fold Discrimination. Pacific Symposium on Biocomputing (2004)
Chris Bailey-Kellogg, Sheetal Chainraj, Gopal Pandurangan
A random graph approach to NMR sequential assignment. RECOMB (2004)
Panagiotis K. Linos, Chris Bailey-Kellogg
Service Learning in Software Engineering and Maintenance. ICSM (2003)
Naren Ramakrishnan, Chris Bailey-Kellogg
Sampling strategies for mining in data-scarce domains. Comput. Sci. Eng. 4 (4) (2002)