M
Magdalena Rother
Researcher at Adam Mickiewicz University in Poznań
Publications - 10
Citations - 691
Magdalena Rother is an academic researcher from Adam Mickiewicz University in Poznań. The author has contributed to research in topics: RNA & Software development process. The author has an hindex of 7, co-authored 10 publications receiving 600 citations. Previous affiliations of Magdalena Rother include International Institute of Minnesota.
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Journal ArticleDOI
RNA-Puzzles: A CASP-like evaluation of RNA three-dimensional structure prediction
José Almeida Cruz,Marc Frédérick Blanchet,Michal J. Boniecki,Janusz M. Bujnicki,Janusz M. Bujnicki,Shi-Jie Chen,Song Cao,Rhiju Das,Feng Ding,Nikolay V. Dokholyan,Samuel C. Flores,Lili Huang,Christopher A. Lavender,Véronique Lisi,François Major,Katarzyna Mikolajczak,Dinshaw J. Patel,Anna Philips,Anna Philips,Tomasz Puton,John SantaLucia,Fredrick Sijenyi,Thomas Hermann,Kristian Rother,Magdalena Rother,Alexander Serganov,Marcin Skorupski,Tomasz Sołtysiński,Parin Sripakdeevong,Irina Tuszynska,Kevin M. Weeks,Christina Waldsich,Michael Wildauer,Neocles B. Leontis,Eric Westhof +34 more
TL;DR: A first, collective, blind experiment in RNA three-dimensional (3D) structure prediction, encompassing three prediction puzzles, to assess the leading edge of RNA structure prediction techniques; compare existing methods and tools; and evaluate their relative strengths, weaknesses, and limitations.
Journal ArticleDOI
ModeRNA: a tool for comparative modeling of RNA 3D structure
TL;DR: ModeRNA can model post-transcriptional modifications, a functionally important feature analogous to post- translational modifications in proteins, and is equipped with many functions for merging fragments of different nucleic acid structures into a single model and analyzing their geometry.
Journal ArticleDOI
RNA and protein 3D structure modeling: similarities and differences.
Kristian Rother,Magdalena Rother,Magdalena Rother,Michal J. Boniecki,Tomasz Puton,Tomasz Puton,Janusz M. Bujnicki,Janusz M. Bujnicki +7 more
TL;DR: This review discusses template-based and template-free approaches for macromolecular structure prediction, with special emphasis on comparison between the already tried-and-tested methods for protein structure modeling and the very recently developed “protein-like” modeling methods for RNA.
Journal ArticleDOI
ModeRNA server
Magdalena Rother,Kaja Milanowska,Tomasz Puton,Jaroslaw Jeleniewicz,Kristian Rother,Janusz M. Bujnicki +5 more
TL;DR: The ModeRNA server as discussed by the authors is an online tool for RNA 3D structure modeling by the comparative approach, based on a template RNA structure and a user-defined target-template sequence alignment.
Journal ArticleDOI
A toolbox for developing bioinformatics software
Kristian Rother,Wojciech Potrzebowski,Tomasz Puton,Magdalena Rother,Ewa Wywial,Janusz M. Bujnicki +5 more
TL;DR: 12 techniques that facilitate a quick start into software engineering are described that are useful to plan a project, support the involvement of experts, and to promote higher quality and maintainability of the resulting programs.