WebFR3D—a server for finding, aligning and analyzing recurrent RNA 3D motifs

by Petrov, Anton I., Zirbel, Craig L., Leontis, Neocles B.
Published 2011

Automated classification of RNA 3D motifs and the RNA 3D Motif Atlas

by Petrov, Anton I., Zirbel, Craig L., Leontis, Neocles B.
Published 2013

A Three-Dimensional RNA Motif in Potato spindle tuber viroid Mediates Trafficking from Palisade Mesophyll to Spongy Mesophyll in Nicotiana benthamiana([W])

by Takeda, Ryuta, Petrov, Anton I., Leontis, Neocles B., Ding, Biao
Published 2011

Quantum chemical studies of nucleic acids: Can we construct a bridge to the RNA structural biology and bioinformatics communities?

by Šponer, Jiří, Šponer, Judit E., Petrov, Anton I., Leontis, Neocles B.
Published in J Phys Chem B (2010)

R3D Align web server for global nucleotide to nucleotide alignments of RNA 3D structures

by Rahrig, Ryan R., Petrov, Anton I., Leontis, Neocles B., Zirbel, Craig L.
Published 2013

JAR3D Webserver: Scoring and aligning RNA loop sequences to known 3D motifs

by Roll, James, Zirbel, Craig L., Sweeney, Blake, Petrov, Anton I., Leontis, Neocles
Published in Nucleic Acids Res (2016)

Comprehensive survey and geometric classification of base triples in RNA structures

by Abu Almakarem, Amal S., Petrov, Anton I., Stombaugh, Jesse, Zirbel, Craig L., Leontis, Neocles B.
Published 2012

Identifying novel sequence variants of RNA 3D motifs

by Zirbel, Craig L., Roll, James, Sweeney, Blake A., Petrov, Anton I., Pirrung, Meg, Leontis, Neocles B.
Published in Nucleic Acids Res (2015)

R3D-2-MSA: the RNA 3D structure-to-multiple sequence alignment server

by Cannone, Jamie J., Sweeney, Blake A., Petrov, Anton I., Gutell, Robin R., Zirbel, Craig L., Leontis, Neocles
Published in Nucleic Acids Res (2015)

Non-coding RNA analysis using the Rfam database

by Kalvari, Ioanna, Nawrocki, Eric P., Argasinska, Joanna, Quinones-Olvera, Natalia, Finn, Robert D., Bateman, Alex, Petrov, Anton I.
Published in Curr Protoc Bioinformatics (2018)

The Nucleic Acid Database: new features and capabilities

by Coimbatore Narayanan, Buvaneswari, Westbrook, John, Ghosh, Saheli, Petrov, Anton I., Sweeney, Blake, Zirbel, Craig L., Leontis, Neocles B., Berman, Helen M.
Published 2014

Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families

by Kalvari, Ioanna, Argasinska, Joanna, Quinones-Olvera, Natalia, Nawrocki, Eric P, Rivas, Elena, Eddy, Sean R, Bateman, Alex, Finn, Robert D, Petrov, Anton I
Published in Nucleic Acids Res (2018)

Rfam 14: expanded coverage of metagenomic, viral and microRNA families

by Kalvari, Ioanna, Nawrocki, Eric P, Ontiveros-Palacios, Nancy, Argasinska, Joanna, Lamkiewicz, Kevin, Marz, Manja, Griffiths-Jones, Sam, Toffano-Nioche, Claire, Gautheret, Daniel, Weinberg, Zasha, Rivas, Elena, Eddy, Sean R, Finn, Robert D, Bateman, Alex, Petrov, Anton I
Published in Nucleic Acids Res (2020)

R2DT is a framework for predicting and visualising RNA secondary structure using templates

by Sweeney, Blake A., Hoksza, David, Nawrocki, Eric P., Ribas, Carlos Eduardo, Madeira, Fábio, Cannone, Jamie J., Gutell, Robin, Maddala, Aparna, Meade, Caeden D., Williams, Loren Dean, Petrov, Anton S., Chan, Patricia P., Lowe, Todd M., Finn, Robert D., Petrov, Anton I.
Published in Nat Commun (2021)

Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research

by Hufsky, Franziska, Lamkiewicz, Kevin, Almeida, Alexandre, Aouacheria, Abdel, Arighi, Cecilia, Bateman, Alex, Baumbach, Jan, Beerenwinkel, Niko, Brandt, Christian, Cacciabue, Marco, Chuguransky, Sara, Drechsel, Oliver, Finn, Robert D, Fritz, Adrian, Fuchs, Stephan, Hattab, Georges, Hauschild, Anne-Christin, Heider, Dominik, Hoffmann, Marie, Hölzer, Martin, Hoops, Stefan, Kaderali, Lars, Kalvari, Ioanna, von Kleist, Max, Kmiecinski, Renó, Kühnert, Denise, Lasso, Gorka, Libin, Pieter, List, Markus, Löchel, Hannah F, Martin, Maria J, Martin, Roman, Matschinske, Julian, McHardy, Alice C, Mendes, Pedro, Mistry, Jaina, Navratil, Vincent, Nawrocki, Eric P, O’Toole, Áine Niamh, Ontiveros-Palacios, Nancy, Petrov, Anton I, Rangel-Pineros, Guillermo, Redaschi, Nicole, Reimering, Susanne, Reinert, Knut, Reyes, Alejandro, Richardson, Lorna, Robertson, David L, Sadegh, Sepideh, Singer, Joshua B, Theys, Kristof, Upton, Chris, Welzel, Marius, Williams, Lowri, Marz, Manja
Published in Brief Bioinform (2020)