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List of works by Marta Szachniuk

A new molecular mechanism of RNA circularization and the microRNA sponge formation

scientific article published on 17 November 2020

An algorithm for an automatic NOE pathways analysis of 2D NMR spectra of RNA duplexes.

scientific article published in January 2004

An assignment walk through 3D NMR spectrum

scientific article published in March 2009

Assigning NMR spectra of irregular RNAs by heuristic algorithms

scientific article published in March 2015

Automated 3D RNA structure prediction using the RNAComposer method for riboswitches

scientific article

Automated 3D structure composition for large RNAs

scientific article

Automated RNA 3D Structure Prediction with RNAComposer

Bioinformatics Study of Structural Patterns in Plant MicroRNA Precursors

scientific article (publication date: 9 February 2017)

Building the library of RNA 3D nucleotide conformations using the clustering approach

Computational Pipeline for Reference-Free Comparative Analysis of RNA 3D Structures Applied to SARS-CoV-2 UTR Models

scientific article published on 25 August 2022

Discovering Structural Motifs in miRNA Precursors from the Viridiplantae Kingdom

scientific article published on 06 June 2018

DrawTetrado to create layer diagrams of G4 structures

scientific article published on 2 August 2022

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

scientific article published on 31 January 2020

Entanglements of structure elements revealed in RNA 3D models

scientific article published on 27 September 2021

Evaluation of the stereochemical quality of predicted RNA 3D models in the RNA-Puzzles submissions

scientific article published in February 2022

Evaluation of the stereochemical quality of predicted RNA 3D models in the RNA-Puzzles submissions

scientific article published on 23 August 2021

Evolutionary approach to NOE paths assignment in RNA structure elucidation

How bioinformatics resources work with G4 RNAs

scientific article published on 08 September 2020

In Vitro and in Silico Analysis of miR-125a with rs12976445 Polymorphism in Breast Cancer Patients

scientific article published on 17 October 2020

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

scientific article

MCQ4Structures to compute similarity of molecule structures

scientific article published on 11 April 2013

MLP accompanied beam search for the resonance assignment problem

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

scientific article published in 2005

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

scientific article published on 11 December 2017

New functionality of RNAComposer: an application to shape the axis of miR160 precursor structure

scientific article published on 14 October 2016

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

scientific article published on 2 September 2015

ONQUADRO: a database of experimentally determined quadruplex structures

scientific article published on 7 January 2022

Optimal pathway reconstruction on 3D NMR maps

scholarly article by Marta Szachniuk et al published February 2015 in Discrete Applied Mathematics

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

scientific article published in 2012

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

scientific article

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

scientific article published on 5 October 2007

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

scientific article published on 24 February 2005

RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures

scientific article published on 16 April 2015

RNA-Puzzles Round III: 3D RNA structure prediction of five riboswitches and one ribozyme

scientific article

RNA-Puzzles Round IV: 3D structure predictions of four ribozymes and two aptamers

scientific article published on 05 May 2020

RNA-Puzzles toolkit: a computational resource of RNA 3D structure benchmark datasets, structure manipulation, and evaluation tools

scientific article published on 01 January 2020

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

scholarly article by Maciej Antczak published in August 2018

RNAloops: a database of RNA multiloops

scientific article published on 2 September 2022

RNAlyzer--novel approach for quality analysis of RNA structural models

scientific article published on 25 April 2013

RNApdbee 2.0: multifunctional tool for RNA structure annotation.

scientific article published in July 2018

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

scientific article

RNApolis: Computational Platform for RNA Structure Analysis

scientific article published in June 2019

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

scientific article published on 11 July 2022

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

scientific article published on 29 March 2022

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

scientific article published on 11 June 2015

RNAthor - fast, accurate normalization, visualization and statistical analysis of RNA probing data resolved by capillary electrophoresis

scientific article published on 01 October 2020

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

scientific article published on 01 January 2019

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

scientific article published on 24 March 2016

Sorting signal targeting mRNA into hepatic extracellular vesicles

scientific article

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

Topology-based classification of tetrads and quadruplex structures

scientific article published on 01 February 2020

Turning data into folds using RNAComposer

Virxicon: A Lexicon Of Viral Sequences

scientific article published on 26 December 2020

When will RNA get its AlphaFold moment?

scientific article published on 13 September 2023

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