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Craig L.Zirbel
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FR3D: finding local and composite recurrent structural motifs in RNA 3D structures
M Sarver, CL Zirbel, J Stombaugh, A Mokdad, NB Leontis
Journal of mathematical biology 56, 215-252, 2008
3312008
Frequency and isostericity of RNA base pairs
J Stombaugh, CL Zirbel, E Westhof, NB Leontis
Nucleic acids research 37 (7), 2294-2312, 2009
2552009
The Nucleic Acid Database: new features and capabilities
B Coimbatore Narayanan, J Westbrook, S Ghosh, AI Petrov, B Sweeney, ...
Nucleic acids research 42 (D1), D114-D122, 2014
2282014
Classification and energetics of the base-phosphate interactions in RNA
CL Zirbel, JE Šponer, J Šponer, J Stombaugh, NB Leontis
Nucleic acids research 37 (15), 4898-4918, 2009
1872009
Classification and energetics of the base-phosphate interactions in RNA
CL Zirbel, JE Šponer, J Šponer, J Stombaugh, NB Leontis
Nucleic acids research 37 (15), 4898-4918, 2009
1872009
Automated classification of RNA 3D motifs and the RNA 3D Motif Atlas
AI Petrov, CL Zirbel, NB Leontis
Rna 19 (10), 1327-1340, 2013
1762013
Nonredundant 3D structure datasets for RNA knowledge extraction and benchmarking
NB Leontis, CL Zirbel
RNA 3D structure analysis and prediction, 281-298, 2012
1322012
Comprehensive survey and geometric classification of base triples in RNA structures
AS Abu Almakarem, AI Petrov, J Stombaugh, CL Zirbel, NB Leontis
Nucleic Acids Research 40 (4), 1407-1423, 2012
1082012
WebFR3D—a server for finding, aligning and analyzing recurrent RNA 3D motifs
AI Petrov, CL Zirbel, NB Leontis
Nucleic acids research 39 (suppl_2), W50-W55, 2011
772011
R3D Align: global pairwise alignment of RNA 3D structures using local superpositions
RR Rahrig, NB Leontis, CL Zirbel
Bioinformatics 26 (21), 2689-2697, 2010
722010
A mean-field statistical theory for the nonlinear Schrödinger equation
R Jordan, B Turkington, CL Zirbel
Physica D: Nonlinear Phenomena 137 (3-4), 353-378, 2000
522000
A mean-field statistical theory for the nonlinear Schrödinger equation
R Jordan, B Turkington, CL Zirbel
Physica D: Nonlinear Phenomena 137 (3-4), 353-378, 2000
522000
Identifying novel sequence variants of RNA 3D motifs
CL Zirbel, J Roll, BA Sweeney, AI Petrov, M Pirrung, NB Leontis
Nucleic acids research 43 (15), 7504-7520, 2015
512015
The RNA Ontology (RNAO): An ontology for integrating RNA sequence and structure data
R Hoehndorf, C Batchelor, T Bittner, M Dumontier, K Eilbeck, R Knight, ...
Applied Ontology 6 (1), 53-89, 2011
492011
The RNA 3D Motif Atlas: Computational methods for extraction, organization and evaluation of RNA motifs
LG Parlea, BA Sweeney, M Hosseini-Asanjan, CL Zirbel, NB Leontis
Methods 103, 99-119, 2016
402016
RNA 3D structural motifs: definition, identification, annotation, and database searching
L Nasalean, J Stombaugh, CL Zirbel, NB Leontis
Non-protein coding RNAs, 1-26, 2009
382009
Sharing and archiving nucleic acid structure mapping data
P Rocca-Serra, S Bellaousov, A Birmingham, C Chen, P Cordero, R Das, ...
Rna 17 (7), 1204-1212, 2011
362011
Isosteric and nonisosteric base pairs in RNA motifs: Molecular dynamics and bioinformatics study of the sarcin–ricin internal loop
M Havrila, K Réblová, CL Zirbel, NB Leontis, J Šponer
The journal of physical chemistry B 117 (46), 14302-14319, 2013
342013
Lagrangian observations of homogeneous random environments
CL Zirbel
Advances in Applied Probability 33 (4), 810-835, 2001
332001
RNA 3-dimensional structural motifs as a critical constraint of viroid RNA evolution
Y Wang, CL Zirbel, NB Leontis, B Ding
PLoS Pathogens 14 (2), e1006801, 2018
322018
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Articles 1–20