Mariusz Popenda
Mariusz Popenda
Dr chemii, PAN
Verified email at
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Automated 3D structure composition for large RNAs
M Popenda, M Szachniuk, M Antczak, KJ Purzycka, P Lukasiak, N Bartol, ...
Nucleic Acids Research 40 (14), e112-e112, 2012
New functionality of RNAComposer: an application to shape the axis of miR160 precursor structure
M Antczak, M Popenda, T Zok, J Sarzynska, T Ratajczak, K Tomczyk, ...
Acta Biochimica Polonica 63 (4), 737-744, 2016
RNA-Puzzles Round III: 3D RNA structure prediction of five riboswitches and one ribozyme
Z Miao, RW Adamiak, M Antczak, RT Batey, AJ Becka, M Biesiada, ...
Rna 23 (5), 655-672, 2017
RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures
Z Miao, RW Adamiak, MF Blanchet, M Boniecki, JM Bujnicki, SJ Chen, ...
Rna 21 (6), 1066-1084, 2015
RNA FRABASE 2.0: an advanced web-accessible database with the capacity to search the three-dimensional fragments within RNA structures
M Popenda, M Szachniuk, M Blazewicz, S Wasik, EK Burke, J Blazewicz, ...
BMC bioinformatics 11, 1-12, 2010
RNA-Puzzles Round IV: 3D structure predictions of four ribozymes and two aptamers
Z Miao, RW Adamiak, M Antczak, MJ Boniecki, J Bujnicki, SJ Chen, ...
Rna 26 (8), 982-995, 2020
RNApdbee 2.0: multifunctional tool for RNA structure annotation
T Zok, M Antczak, M Zurkowski, M Popenda, J Blazewicz, RW Adamiak, ...
Nucleic acids research 46 (W1), W30-W35, 2018
RNA FRABASE version 1.0: an engine with a database to search for the three-dimensional fragments within RNA structures
M Popenda, M Błażewicz, M Szachniuk, RW Adamiak
Nucleic Acids Research 36 (suppl_1), D386-D391, 2008
RNApdbee—a webserver to derive secondary structures from pdb files of knotted and unknotted RNAs
M Antczak, T Zok, M Popenda, P Lukasiak, RW Adamiak, J Blazewicz, ...
Nucleic acids research 42 (W1), W368-W372, 2014
High salt solution structure of a left-handed RNA double helix
M Popenda, J Milecki, RW Adamiak
Nucleic acids research 32 (13), 4044-4054, 2004
Crystal structure of 2′-O-Me (CGCGCG) 2, an RNA duplex at 1.30 resolution. Hydration pattern of 2′-O-methylated RNA
DA Adamiak, J Milecki, M Popenda, RW Adamiak, Z Dauter, ...
Nucleic acids research 25 (22), 4599-4607, 1997
Automated 3D RNA structure prediction using the RNAComposer method for riboswitches1
KJ Purzycka, M Popenda, M Szachniuk, M Antczak, P Lukasiak, ...
Methods in enzymology 553, 3-34, 2015
Solution structure of RNA duplexes containing alternating CG base pairs: NMR study of r (CGCGCG) 2 and 2′-O-Me (CGCGCG) 2 under low salt conditions
M Popenda, E Biala, J Milecki, RW Adamiak
Nucleic acids research 25 (22), 4589-4598, 1997
New algorithms to represent complex pseudoknotted RNA structures in dot-bracket notation
M Antczak, M Popenda, T Zok, M Zurkowski, RW Adamiak, M Szachniuk
Bioinformatics 34 (8), 1304-1312, 2018
MCQ4Structures to compute similarity of molecule structures
T Zok, M Popenda, M Szachniuk
Central European Journal of Operations Research 22, 457-473, 2014
An Effect of Various Nitrogen Forms Used as Fertilizer on Lupinus albus L. Yield and Protein, Alkaloid and α‐Galactosides Content
D Ciesiołka, M Muzquiz, C Burbano, P Altares, MM Pedrosa, W Wysocki, ...
Journal of Agronomy and Crop Science 191 (6), 458-463, 2005
New in silico approach to assessing RNA secondary structures with non-canonical base pairs
A Rybarczyk, N Szostak, M Antczak, T Zok, M Popenda, R Adamiak, ...
BMC bioinformatics 16, 1-12, 2015
RNAlyzer—novel approach for quality analysis of RNA structural models
P Lukasiak, M Antczak, T Ratajczak, JM Bujnicki, M Szachniuk, ...
Nucleic Acids Research 41 (12), 5978-5990, 2013
RNAssess—a web server for quality assessment of RNA 3D structures
P Lukasiak, M Antczak, T Ratajczak, M Szachniuk, M Popenda, ...
Nucleic Acids Research 43 (W1), W502-W506, 2015
Topology-based classification of tetrads and quadruplex structures
M Popenda, J Miskiewicz, J Sarzynska, T Zok, M Szachniuk
Bioinformatics 36 (4), 1129-1134, 2020
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