Marta Szachniuk

According to our database, Marta Szachniuk authored at least 34 papers between 2004 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2023

WebTetrado: a webserver to explore quadruplexes in nucleic acid 3D structures.

Bartosz Adamczyk, Michal Zurkowski, Marta Szachniuk, Tomasz Zok

Nucleic Acids Res., July, 2023

High-quality, customizable heuristics for RNA 3D structure alignment.

Michal Zurkowski, Maciej Antczak, Marta Szachniuk

Bioinform., May, 2023

Machine learning for RNA 2D structure prediction benchmarked on experimental data.

Marek Justyna, Maciej Antczak, Marta Szachniuk

Briefings Bioinform., May, 2023

2022

ONQUADRO: a database of experimentally determined quadruplex structures.

Tomasz Zok, Natalia Kraszewska, Joanna Miskiewicz, Paulina Pielacinska, Michal Zurkowski, Marta Szachniuk

Nucleic Acids Res., 2022

RNAspider: a webserver to analyze entanglements in RNA 3D structures.

Kamil Luwanski, Vladyslav Hlushchenko, Mariusz Popenda, Tomasz Zok, Joanna Sarzynska, Daniil Martsich, Marta Szachniuk, Maciej Antczak

Nucleic Acids Res., 2022

DrawTetrado to create layer diagrams of G4 structures.

Michal Zurkowski, Tomasz Zok, Marta Szachniuk

Bioinform., 2022

RNAloops: a database of RNA multiloops.

Jakub Wiedemann, Jacek Kaczor, Maciej Milostan, Tomasz Zok, Jacek Blazewicz, Marta Szachniuk, Maciej Antczak

Bioinform., 2022

RNAsolo: a repository of cleaned PDB-derived RNA 3D structures.

Bartosz Adamczyk, Maciej Antczak, Marta Szachniuk

Bioinform., 2022

2021

Virxicon: a lexicon of viral sequences.

Mateusz Kudla, Kaja Gutowska, Jaroslaw Synak, Mirko Weber, Katrin Sophie Bohnsack, Piotr Lukasiak, Thomas Villmann, Jacek Blazewicz, Marta Szachniuk

Bioinform., 2021

How bioinformatics resources work with G4 RNAs.

Joanna Miskiewicz, Joanna Sarzynska, Marta Szachniuk

Briefings Bioinform., 2021

2020

ElTetrado: a tool for identification and classification of tetrads and quadruplexes.

Tomasz Zok, Mariusz Popenda, Marta Szachniuk

BMC Bioinform., 2020

Topology-based classification of tetrads and quadruplex structures.

Mariusz Popenda, Joanna Miskiewicz, Joanna Sarzynska, Tomasz Zok, Marta Szachniuk

Bioinform., 2020

2019

RNAvista: a webserver to assess RNA secondary structures with non-canonical base pairs.

Maciej Antczak, Marcin Zablocki, Tomasz Zok, Agnieszka Rybarczyk, Jacek Blazewicz, Marta Szachniuk

Bioinform., 2019

2018

RNApdbee 2.0: multifunctional tool for RNA structure annotation.

Tomasz Zok, Maciej Antczak, Michal Zurkowski, Mariusz Popenda, Jacek Blazewicz, Ryszard W. Adamiak, Marta Szachniuk

Nucleic Acids Res., 2018

RNAfitme: a webserver for modeling nucleobase and nucleoside residue conformation in fixed-backbone RNA structures.

Maciej Antczak, Tomasz Zok, Maciej Osowiecki, Mariusz Popenda, Ryszard W. Adamiak, Marta Szachniuk

BMC Bioinform., 2018

New algorithms to represent complex pseudoknotted RNA structures in dot-bracket notation.

Maciej Antczak, Mariusz Popenda, Tomasz Zok, Michal Zurkowski, Ryszard W. Adamiak, Marta Szachniuk

Bioinform., 2018

2017

LCS-TA to identify similar fragments in RNA 3D structures.

Jakub Wiedemann, Tomasz Zok, Maciej Milostan, Marta Szachniuk

BMC Bioinform., 2017

2016

Recent Advances in Operations Research in Computational Biology, Bioinformatics and Medicine.

Metin Türkay, Giovanni Felici, Marta Szachniuk, Piotr Lukasiak

RAIRO Oper. Res., 2016

2015

RNAssess - a web server for quality assessment of RNA 3D structures.

Piotr Lukasiak, Maciej Antczak, Tomasz Ratajczak, Marta Szachniuk, Mariusz Popenda, Ryszard W. Adamiak, Jacek Blazewicz

Nucleic Acids Res., 2015

Optimal pathway reconstruction on 3D NMR maps.

Marta Szachniuk, Maria Cristina De Cola, Giovanni Felici, Dominique de Werra, Jacek Blazewicz

Discret. Appl. Math., 2015

New in silico approach to assessing RNA secondary structures with non-canonical base pairs.

Agnieszka Rybarczyk, Natalia Szostak, Maciej Antczak, Tomasz Zok, Mariusz Popenda, Ryszard W. Adamiak, Jacek Blazewicz, Marta Szachniuk

BMC Bioinform., 2015

Building the Library of Rna 3D Nucleotide Conformations Using the Clustering Approach.

Tomasz Zok, Maciej Antczak, Martin Riedel, David Nebel, Thomas Villmann, Piotr Lukasiak, Jacek Blazewicz, Marta Szachniuk

Int. J. Appl. Math. Comput. Sci., 2015

2014

The Orderly Colored Longest Path Problem - a survey of applications and new algorithms.

Marta Szachniuk, Maria Cristina De Cola, Giovanni Felici, Jacek Blazewicz

RAIRO Oper. Res., 2014

RNApdbee - a webserver to derive secondary structures from pdb files of knotted and unknotted RNAs.

Maciej Antczak, Tomasz Zok, Mariusz Popenda, Piotr Lukasiak, Ryszard W. Adamiak, Jacek Blazewicz, Marta Szachniuk

Nucleic Acids Res., 2014

MCQ4Structures to compute similarity of molecule structures.

Tomasz Zok, Mariusz Popenda, Marta Szachniuk

Central Eur. J. Oper. Res., 2014

2013

MLP accompanied beam search for the resonance assignment problem.

Marta Szachniuk, Mikolaj Malaczynski, Erwin Pesch, Edmund K. Burke, Jacek Blazewicz

J. Heuristics, 2013

2012

Poseidon: An information retrieval and extraction system for metagenomic marine science.

Marcin Radom, Agnieszka Rybarczyk, Renzo Kottmann, Piotr Formanowicz, Marta Szachniuk, Frank Oliver Glöckner, Dietrich Rebholz-Schuhmann, Jacek Blazewicz

Ecol. Informatics, 2012

2010

RNA FRABASE 2.0: an advanced web-accessible database with the capacity to search the three-dimensional fragments within RNA structures.

Mariusz Popenda, Marta Szachniuk, Marek Blazewicz, Szymon Wasik, Edmund K. Burke, Jacek Blazewicz, Ryszard W. Adamiak

BMC Bioinform., 2010

2009

An assignment walk through 3D NMR spectrum.

Marta Szachniuk, Mariusz Popenda, Ryszard W. Adamiak, Jacek Blazewicz

Proceedings of the 2009 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2009

2008

RNA FRABASE version 1.0: an engine with a database to search for the three-dimensional fragments within RNA structures.

Mariusz Popenda, Marek Blazewicz, Marta Szachniuk, Ryszard W. Adamiak

Nucleic Acids Res., 2008

2005

RNA tertiary structure determination: NOE pathways construction by tabu search.

Jacek Blazewicz, Marta Szachniuk, Adam Wójtowicz

Bioinform., 2005

NMR Analysis of RNA Bulged structures: Tabu Search Application in NOE Signal Assignment.

Marta Szachniuk, Lukasz Popenda, Zofia Gdaniec, Ryszard W. Adamiak, Jacek Blazewicz

Proceedings of the 2005 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2005

2004

An Algorithm for an Automatic NOE Pathways Analysis of 2D NMR Spectra of RNA Duplexes.

Ryszard W. Adamiak, Jacek Blazewicz, Piotr Formanowicz, Zofia Gdaniec, Marta Kasprzak, Mariusz Popenda, Marta Szachniuk

J. Comput. Biol., 2004

Evolutionary approach to NOE paths assignment in RNA structure elucidation.

Jacek Blazewicz, Marta Szachniuk, Adam Wójtowicz

Proceedings of the 2004 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2004