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2020 – today
- 2022
[j28]Ambuj Kumar, Pranav M. Khade, Karin S. Dorman
, Robert L. Jernigan:
Coarse-graining protein structures into their dynamic communities with DCI, a dynamic community identifier. Bioinform. 38(10): 2727-2733 (2022)- 2021
- [j27]Sayane Shome, Kannan Sankar, Robert L. Jernigan:
Simulated Drug Efflux for the AbgT Family of Membrane Transporters. J. Chem. Inf. Model. 61(11): 5673-5681 (2021) - [p1]Eshel Faraggi, Robert L. Jernigan, Andrzej Kloczkowski:
A Hybrid Levenberg-Marquardt Algorithm on a Recursive Neural Network for Scoring Protein Models. Artificial Neural Networks, 3rd Edition 2021: 307-316
2010 – 2019
- 2019
- [j26]Eshel Faraggi, A. Keith Dunker, Robert L. Jernigan, Andrzej Kloczkowski:
Entropy, Fluctuations, and Disordered Proteins. Entropy 21(8): 764 (2019) - [c13]Michael T. Zimmermann, Fadi Towfic, Robert L. Jernigan, Andrzej Kloczkowski:
Characteristics of Protein Fold Space Exhibits Close Dependence on Domain Usage. IWBBIO (1) 2019: 356-369 - 2016
- [j25]Sumudu P. Leelananda, Andrzej Kloczkowski, Robert L. Jernigan:
Fold-specific sequence scoring improves protein sequence matching. BMC Bioinform. 17: 328 (2016) - [j24]Sumudu P. Leelananda, Robert L. Jernigan, Andrzej Kloczkowski:
Predicting Designability of Small Proteins from Graph Features of Contact Maps. J. Comput. Biol. 23(5): 400-411 (2016) - [j23]Nikita Chopra, Thomas E. Wales, Raji E. Joseph, Scott E. Boyken, John R. Engen, Robert L. Jernigan, Amy H. Andreotti:
Dynamic Allostery Mediated by a Conserved Tryptophan in the Tec Family Kinases. PLoS Comput. Biol. 12(3) (2016) - [c12]Drena Dobbs, Steven E. Brenner, Vasant G. Honavar, Robert L. Jernigan, Alain Laederach, Quaid Morris:
Session Introduction. PSB 2016: 429-432 - 2015
- [j22]Hyuntae Na, Robert L. Jernigan, Guang Song:
Bridging between NMA and Elastic Network Models: Preserving All-Atom Accuracy in Coarse-Grained Models. PLoS Comput. Biol. 11(10) (2015) - [c11]Yuanyuan Huang, Kejue Jia, Robert L. Jernigan, Zhijun Wu:
PRESS-PLOT: An Online Server for Protein Structural Analysis and Evaluation with Residue-level Virtual Angle Correlation Plots. ISBRA 2015: 150-161 - [c10]Sumudu P. Leelananda, Robert L. Jernigan, Andrzej Kloczkowski:
Exploration of Designability of Proteins Using Graph Features of Contact Maps: Beyond Lattice Models. RECOMB 2015: 188-201 - 2014
- [c9]Kannan Sankar, Rasna R. Walia, Carla M. Mann, Robert L. Jernigan, Vasant G. Honavar, Drena Dobbs:
An analysis of conformational changes upon RNA-protein binding. BCB 2014: 592-593 - 2012
- [j21]Michael T. Zimmermann, Robert L. Jernigan:
Protein Loop Dynamics Are Complex and Depend on the Motions of the Whole Protein. Entropy 14(4): 687-700 (2012) - [j20]Yuanyuan Huang, Steve Bonett, Andrzej Kloczkowski, Robert L. Jernigan, Zhijun Wu:
P.R.E.S.S. - an R-package for Exploring Residual-Level protein Structural Statistics. J. Bioinform. Comput. Biol. 10(3) (2012) - [j19]Brittany Burton, Michael T. Zimmermann, Robert L. Jernigan, Yongmei Wang:
A Computational Investigation on the Connection between Dynamics Properties of Ribosomal Proteins and Ribosome Assembly. PLoS Comput. Biol. 8(5) (2012) - 2011
- [j18]Michael T. Zimmermann, Andrzej Kloczkowski, Robert L. Jernigan:
MAVEN: Motion Analysis and Visualization of Elastic Networks and Structural Ensembles. BMC Bioinform. 12: 264 (2011) - [j17]Di Wu, Stephen Smith, Hannah Mahan, Robert L. Jernigan, Zhijun Wu:
Analysis of protein dynamics using local-DME calculations. Int. J. Bioinform. Res. Appl. 7(2): 146-161 (2011) - [c8]Yuanyuan Huang, Steve Bonett, Andrzej Kloczkowski, Robert L. Jernigan, Zhijun Wu:
P.R.E.S.S. - An R-package for exploring residual-level protein structural statistics. BIBM Workshops 2011: 382-389 - [c7]Juan Luis Fernández Martínez, Esperanza García Gonzalo, Saras Saraswathi, Robert L. Jernigan, Andrzej Kloczkowski:
Particle Swarm Optimization: A Powerful Family of Stochastic Optimizers. Analysis, Design and Application to Inverse Modelling. ICSI (1) 2011: 1-8 - 2010
- [j16]Yaping Feng, Andrzej Kloczkowski, Robert L. Jernigan:
Potentials 'R'Us web-server for protein energy estimations with coarse-grained knowledge-based potentials. BMC Bioinform. 11: 92 (2010) - [c6]Michael T. Zimmermann, Aris Skliros, Saras Saraswathi, Andrzej Kloczkowski, Robert L. Jernigan:
Immunoglobulin functional motions and their effects on the complementarity determining regions. BCB 2010: 621-626 - [c5]Ataur R. Katebi, Pawel Gniewek, Michael T. Zimmermann, Saras Saraswathi, Zhenming Gong, Christopher K. Tuggle, Andrzej Kloczkowski, Robert L. Jernigan:
Immunological implications of a structural analysis of two different porcine IL1β proteins expressed in macrophages and embryos. BCB 2010: 653-655 - [c4]Saras Saraswathi, Andrzej Kloczkowski, Robert L. Jernigan:
An Extreme Learning Machine Classifier for Prediction of Relative Solvent Accessibility in Proteins. IJCCI (ICFC-ICNC) 2010: 364-369 - [c3]Saras Saraswathi, Robert L. Jernigan, Andrzej Kloczkowski, Andrzej Kolinski:
Protein Secondary Structure Prediction using Knowledge-based Potentials. IJCCI (ICFC-ICNC) 2010: 370-375
2000 – 2009
- 2009
- [j15]Feng Cui, Kriti Mukhopadhyay, Won-Bin Young, Robert L. Jernigan, Zhijun Wu:
Refinement of under-determined loops of Human Prion Protein by database-derived distance constraints. Int. J. Data Min. Bioinform. 3(4): 454-468 (2009) - [j14]Xiaoyong Sun, Di Wu, Robert L. Jernigan, Zhijun Wu:
PRTAD: A database for protein residue torsion angle distributions. Int. J. Data Min. Bioinform. 3(4): 469-482 (2009) - 2008
- [j13]Myron Peto, Andrzej Kloczkowski, Vasant G. Honavar, Robert L. Jernigan:
Use of machine learning algorithms to classify binary protein sequences as highly-designable or poorly-designable. BMC Bioinform. 9 (2008) - [j12]Feng Cui, Robert L. Jernigan, Zhijun Wu:
Knowledge-Based versus experimentally Acquired Distance and Angle Constraints for NMR Structure Refinement. J. Bioinform. Comput. Biol. 6(2): 283-300 (2008) - 2007
- [j11]Haitao Cheng, Taner Z. Sen, Robert L. Jernigan, Andrzej Kloczkowski:
Consensus Data Mining (CDM) Protein Secondary Structure Prediction Server: Combining GOR V and Fragment Database Mining (FDM). Bioinform. 23(19): 2628-2630 (2007) - [j10]Di Wu, Feng Cui, Robert L. Jernigan, Zhijun Wu:
PIDD: database for Protein Inter-atomic Distance Distributions. Nucleic Acids Res. 35(Database-Issue): 202-207 (2007) - [j9]Michael Terribilini, Jeffry D. Sander, Jae-Hyung Lee, Peter Zaback, Robert L. Jernigan, Vasant G. Honavar, Drena Dobbs:
RNABindR: a server for analyzing and predicting RNA-binding sites in proteins. Nucleic Acids Res. 35(Web-Server-Issue): 578-584 (2007) - 2006
- [j8]Changhui Yan, Michael Terribilini, Feihong Wu, Robert L. Jernigan, Drena Dobbs, Vasant G. Honavar:
Predicting DNA-binding sites of proteins from amino acid sequence. BMC Bioinform. 7: 262 (2006) - [j7]Taner Z. Sen, Andrzej Kloczkowski, Robert L. Jernigan:
Functional clustering of yeast proteins from the protein-protein interaction network. BMC Bioinform. 7: 355 (2006) - [c2]Michael Terribilini, Jae-Hyung Lee, Changhui Yan, Robert L. Jernigan, Susan Carpenter:
Identifying Interaction Sites in "Recalcitrant" Proteins: Predicted Protein and RNA Binding Sites in Rev Proteins of HIV-1 and EIAV Agree with Experimental Data. Pacific Symposium on Biocomputing 2006: 415-426 - 2005
- [j6]Taner Z. Sen, Robert L. Jernigan, Jean Garnier, Andrzej Kloczkowski:
GOR V server for protein secondary structure prediction. Bioinform. 21(11): 2787-2788 (2005) - [j5]Feng Cui, Robert L. Jernigan, Zhijun Wu:
Refinement of Nmr-determined Protein Structures with Database Derived Distance Constraints. J. Bioinform. Comput. Biol. 3(6): 1315-1330 (2005) - [i1]Michael Terribilini, Jae-Hyung Lee, Changhui Yan, Robert L. Jernigan, Susan Carpenter, Vasant G. Honavar, Drena Dobbs:
Identifying Interaction Sites in "Recalcitrant" Proteins: Predicted Protein and Rna Binding Sites in Rev Proteins of Hiv-1 and Eiav Agree with Experimental Data. CoRR abs/cs/0511075 (2005) - 2004
- [j4]Taner Z. Sen, Andrzej Kloczkowski, Robert L. Jernigan, Changhui Yan, Vasant G. Honavar, Kai-Ming Ho, Cai-Zhuang Wang, Yungok Ihm, Haibo Cao, Xun Gu, Drena Dobbs:
Predicting binding sites of hydrolase-inhibitor complexes by combining several methods. BMC Bioinform. 5: 205 (2004) - 2003
- [c1]Moon K. Kim, Robert L. Jernigan, Bruce A. Shapiro, Gregory S. Chirikjian:
A Study of Conformational Changes in Macromolecules: The Coarse-Grained Elastic Network Interpolation Method. METMBS 2003: 140-145 - 2002
- [j3]Pemra Doruker, Robert L. Jernigan, Ivet Bahar:
Dynamics of large proteins through hierarchical levels of coarse-grained structures. J. Comput. Chem. 23(1): 119-127 (2002) - [j2]Marc L. Mansfield, David G. Covell, Robert L. Jernigan:
A New Class of Molecular Shape Descriptors, 1. Theory and Properties. J. Chem. Inf. Comput. Sci. 42(2): 259-273 (2002)
1990 – 1999
- 1997
- [j1]Brooke Lustig, Shalini Arora, Robert L. Jernigan:
RNA base-amino acid interaction strengths derived from structures and sequences. Nucleic Acids Res. 25(13): 2562-2565 (1997)
Coauthor Index
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