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ORCIDDrena Dobbs
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2010 – 2019
- 2019
[j22]Carla M. Mann
, Gabriel Martínez-Gálvez, Jordan M. Welker, Wesley A. Wierson, Hirotaka Ata, Maira P. Almeida, Karl J. Clark, Jeffrey J. Essner, Maura McGrail, Stephen C. Ekker, Drena Dobbs:
The Gene Sculpt Suite: a set of tools for genome editing. Nucleic Acids Res. 47(Webserver-Issue): W175-W182 (2019)- 2017
- [j21]Li C. Xue, João P. G. L. M. Rodrigues, Drena Dobbs, Vasant G. Honavar, Alexandre M. J. J. Bonvin:
Template-based protein-protein docking exploiting pairwise interfacial residue restraints. Briefings Bioinform. 18(3): 458-466 (2017) - 2016
- [c18]Drena Dobbs, Steven E. Brenner, Vasant G. Honavar, Robert L. Jernigan, Alain Laederach, Quaid Morris:
Session Introduction. PSB 2016: 429-432 - [c17]Usha Muppirala, Benjamin A. Lewis, Carla M. Mann, Drena Dobbs:
A Motif-Based Method for Predicting Interfacial Residues in Both the RNA and Protein Components of Protein-RNA Complexes. PSB 2016: 445-455 - 2014
- [c16]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
- [j20]Rafael A. Jordan, Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar:
Predicting protein-protein interface residues using local surface structural similarity. BMC Bioinform. 13: 41 (2012) - [j19]Rasna R. Walia, Cornelia Caragea, Benjamin A. Lewis, Fadi Towfic, Michael Terribilini, Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar:
Protein-RNA interface residue prediction using machine learning: an assessment of the state of the art. BMC Bioinform. 13: 89 (2012) - [c15]Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar:
Predicting protective bacterial antigens using random forest classifiers. BCB 2012: 426-433 - 2011
- [j18]Li C. Xue, Drena Dobbs, Vasant G. Honavar:
HomPPI: A Class of Sequence Homology Based Protein-Protein Interface Prediction Methods. BMC Bioinform. 12: 244 (2011) - [j17]Usha Muppirala, Vasant G. Honavar, Drena Dobbs:
Predicting RNA-Protein Interactions Using Only Sequence Information. BMC Bioinform. 12: 489 (2011) - [j16]Benjamin A. Lewis, Rasna R. Walia, Michael Terribilini, Jeff Ferguson, Charles Zheng, Vasant G. Honavar, Drena Dobbs:
PRIDB: a protein-RNA interface database. Nucleic Acids Res. 39(Database-Issue): 277-282 (2011) - [j15]Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar:
Predicting MHC-II Binding Affinity Using Multiple Instance Regression. IEEE ACM Trans. Comput. Biol. Bioinform. 8(4): 1067-1079 (2011) - [c14]Li C. Xue, Rafael A. Jordan, Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar:
Ranking docked models of protein-protein complexes using predicted partner-specific protein-protein interfaces: a preliminary study. BCB 2011: 441-445 - [c13]Li C. Xue, Rasna R. Walia, Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar:
Improving protein-RNA interface prediction by combining sequence homology based method with a naive Bayes classifier: preliminary results. BCB 2011: 556-558 - 2010
- [j14]Jeffry D. Sander, Deepak Reyon, Morgan L. Maeder, Jonathan E. Foley, Stacey Thibodeau-Beganny, Xiaohong Li, Maureen R. Regan, Elizabeth Dahlborg, Mathew J. Goodwin, Fengli Fu, Daniel F. Voytas, J. Keith Joung, Drena Dobbs:
Predicting success of oligomerized pool engineering (OPEN) for zinc finger target site sequences. BMC Bioinform. 11: 543 (2010) - [j13]Fadi Towfic, Cornelia Caragea, David C. Gemperline, Drena Dobbs, Vasant G. Honavar:
Struct-NB: predicting protein-RNA binding sites using structural features. Int. J. Data Min. Bioinform. 4(1): 21-43 (2010) - [j12]Jeffry D. Sander, Morgan L. Maeder, Deepak Reyon, Daniel F. Voytas, J. Keith Joung, Drena Dobbs:
ZiFiT (Zinc Finger Targeter): an updated zinc finger engineering tool. Nucleic Acids Res. 38(Web-Server-Issue): 462-468 (2010)
2000 – 2009
- 2009
- [j11]Cornelia Caragea, Jivko Sinapov, Drena Dobbs, Vasant G. Honavar:
Mixture of experts models to exploit global sequence similarity on biomolecular sequence labeling. BMC Bioinform. 10(S-4) (2009) - [j10]Fengli Fu, Jeffry D. Sander, Morgan L. Maeder, Stacey Thibodeau-Beganny, J. Keith Joung, Drena Dobbs, Leslie L. Miller, Daniel F. Voytas:
Zinc Finger Database (ZiFDB): a repository for information on C2H2 zinc fingers and engineered zinc-finger arrays. Nucleic Acids Res. 37(Database-Issue): 279-283 (2009) - 2008
- [c12]Cornelia Caragea, Jivko Sinapov, Drena Dobbs, Vasant G. Honavar:
Using Global Sequence Similarity to Enhance Biological Sequence Labeling. BIBM 2008: 104-111 - [c11]Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar:
Predicting Protective Linear B-Cell Epitopes Using Evolutionary Information. BIBM 2008: 289-292 - [c10]Jae-Hyung Lee, Michael Hamilton, Colin Gleeson, Cornelia Caragea, Peter Zaback, Jeffry D. Sander, Li C. Xue, Feihong Wu, Michael Terribilini, Vasant G. Honavar, Drena Dobbs:
Striking Similarities in Diverse Telomerase Proteins Revealed by Combining Structure Prediction and Machine Learning Approaches. Pacific Symposium on Biocomputing 2008: 501-512 - 2007
- [j9]Carson M. Andorf, Drena Dobbs, Vasant G. Honavar:
Exploring inconsistencies in genome-wide protein function annotations: a machine learning approach. BMC Bioinform. 8 (2007) - [j8]Cornelia Caragea, Jivko Sinapov, Adrian Silvescu, Drena Dobbs, Vasant G. Honavar:
Glycosylation site prediction using ensembles of Support Vector Machine classifiers. BMC Bioinform. 8 (2007) - [j7]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) - [j6]Jeffry D. Sander, Peter Zaback, J. Keith Joung, Daniel F. Voytas, Drena Dobbs:
Zinc Finger Targeter (ZiFiT): an engineered zinc finger/target site design tool. Nucleic Acids Res. 35(Web-Server-Issue): 599-605 (2007) - [c9]Cornelia Caragea, Jivko Sinapov, Vasant G. Honavar, Drena Dobbs:
Assessing the Performance of Macromolecular Sequence Classifiers. BIBE 2007: 320-326 - [c8]Feihong Wu, Fadi Towfic, Drena Dobbs, Vasant G. Honavar:
Analysis of Protein Protein Dimeric Interfaces. BIBM 2007: 35 - 2006
- [j5]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) - 2005
- [c7]Doina Caragea, Jie Bao, Jyotishman Pathak, Adrian Silvescu, Carson M. Andorf, Drena Dobbs, Vasant G. Honavar:
Information Integration from Semantically Heterogeneous Biological Data Sources. DEXA Workshops 2005: 580-584 - [c6]Doina Caragea, Jyotishman Pathak, Jie Bao, Adrian Silvescu, Carson M. Andorf, Drena Dobbs, Vasant G. Honavar:
Information Integration and Knowledge Acquisition from Semantically Heterogeneous Biological Data Sources. DILS 2005: 175-190 - [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) - [j3]Changhui Yan, Vasant G. Honavar, Drena Dobbs:
Identification of interface residues in protease-inhibitor and antigen-antibody complexes: a support vector machine approach. Neural Comput. Appl. 13(2): 123-129 (2004) - [c5]Changhui Yan, Drena Dobbs, Vasant G. Honavar:
A two-stage classifier for identification of protein-protein interface residues. ISMB/ECCB (Supplement of Bioinformatics) 2004: 371-378 - 2003
- [j2]Xiangyun Wang, Diane Schroeder, Drena Dobbs, Vasant G. Honavar:
Automated data-driven discovery of motif-based protein function classifiers. Inf. Sci. 155(1-2): 1-18 (2003) - 2002
- [c4]Xiangyun Wang, Diane Schroeder, Drena Dobbs, Vasant G. Honavar:
Data-Driven Discovery of Protein Function Classifiers: Decision Trees Based on MEME Motifs outperform PROSITE Patterns and Profiles on Peptidase Families. JCIS 2002: 1193-1199 - [c3]Carson M. Andorf, Drena Dobbs, Vasant G. Honavar:
Discovering Protein Function Classification Rules from Reduced Alphabet Representations of Protein Sequences. JCIS 2002: 1200-1206
1990 – 1999
- 1999
- [c2]Jihoon Yang, Rajesh Parekh, Vasant G. Honavar, Drena Dobbs:
Data-Driven Theory Refinement Using KBDistAl. IDA 1999: 331-342 - [c1]Jihoon Yang, Rajesh Parekh, Vasant G. Honavar, Drena Dobbs:
Data-driven theory refinement algorithms for bioinformatics. IJCNN 1999: 4064-4068 - 1994
- [j1]Drena Dobbs, Wen-Ling Shaiu, Robert M. Benbow:
Modular sequence elements associated with origin regions in eukaryotic chromosomal DNA. Nucleic Acids Res. 22(13): 2479-2489 (1994)
Coauthor Index
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