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RNA structure prediction

A divide-and-conquer approach based on deep learning for long RNA secondary structure prediction: Focus on pseudoknots identification

Loïc Omnes, Eric Angel, Pierre Bartet, François Radvanyi, Fariza Tahi

published 25 Apr 2025

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AmiR-P³: An AI-based microRNA prediction pipeline in plants

Sobhan Ataei, Jafar Ahmadi, Sayed-Amir Marashi, Ilia Abolhasani

published 01 Aug 2024

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Unveiling hidden structural patterns in the SARS-CoV-2 genome: Computational insights and comparative analysis

Alison Ziesel, Hosna Jabbari

published 04 Apr 2024

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De novo prediction of RNA 3D structures with deep generative models

Julius Ramakers, Christopher Frederik Blum, Sabrina König, Stefan Harmeling, Markus Kollmann

published 15 Feb 2024

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Comparative analysis of RNA secondary structure accuracy on predicted RNA 3D models

Mandar Kulkarni, Jayaraman Thangappan, Indrajit Deb, Sangwook Wu

published 01 Sep 2023

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The assessment of molecular dynamics results of three-dimensional RNA aptamer structure prediction

Bejo Ropii, Maulidwina Bethasari, Isa Anshori, Allya Paramita Koesoema, Wervyan Shalannanda, Ardianto Satriawan, Casi Setianingsih, Mohammad Rizki Akbar, Reza Aditama

published 27 Jul 2023

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An apta-aggregation based machine learning assay for rapid quantification of lysozyme through texture parameters

Manoharan Sanjay, Kumar Gaurav, Maria Jesus Gonzalez-Pabon, Julio Fuchs, Susan R. Mikkelsen, Eduardo Cortón

published 08 Mar 2021

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

Julita Gumna, Tomasz Zok, Kacper Figurski, Katarzyna Pachulska-Wieczorek, Marta Szachniuk

published 01 Oct 2020

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Synthesis, purification and crystallization of a putative critical bulge of HAR1 RNA

Monica R. Lares

published 08 Nov 2019

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Structural prediction of RNA switches using conditional base-pair probabilities

Amirhossein Manzourolajdad, John L. Spouge

published 12 Jun 2019

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Extracting information from RNA SHAPE data: Kalman filtering approach

Sana Vaziri, Patrice Koehl, Sharon Aviran

published 21 Nov 2018

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RNA secondary structure prediction with pseudoknots: Contribution of algorithm versus energy model

Hosna Jabbari, Ian Wark, Carlo Montemagno

published 05 Apr 2018

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RNA secondary structure and nucleotide composition of the conserved hallmark sequence of Leishmania SIDER2 retroposons are essential for endonucleolytic cleavage and mRNA degradation

Hiva Azizi, Tatiany P. Romão, Karen Santos Charret, Prasad K. Padmanabhan, Osvaldo P. de Melo Neto, Michaela Müller-McNicoll, Barbara Papadopoulou

published 13 Jul 2017

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